XM_017386909.1

Resource Type: 
Polypeptide
Name: 
XM_017386909.1
Identifier: 
XM_017386909.1-protein
Sequence: 
MAAADTSLSSSSSSSVSMTSPSWTQQEEAPPVISVVIGGESGNQDNSNAG
GLKQVWGKPVNVNGSSGGAAVLSAAVATVDVSSRASEAPAAGVVMDTHSW
PALSKAPPKSASSDSVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTN
TRQRSIKRGTNNGGFIQPSSPQPQAPAVEVLPGKPGITTGESSSHKEGGP
KGGFGNDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWN
HTQQSYGSRDNYMQQQRGAHRGYPRGPHASPFIAPQPLPVRPYPNHMVFP
TDVPQPVFYVQSPESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIE
YYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQ
ASTVVEVQNDRIRKRNEWMKWIMPPGPFSPVSSPQARAKSGHDMLTGQFQ
GVTLDERSVHGHTDMFKKSLSGEFSSQLQHSGGEGDVHSGFEHKSSAGSL
SK
Sequence Length: 
502
Sequence Checksum: 
b09a2dfac54c09b729e766d4542e74b8
View location in JBrowse: 
DCARv2_Chr3:38087394..38093909+
Organism: 
Daucus carota subspecies sativus
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, XM_017386909.1, derives from mRNA, XM_017386909.1.
Blast Results: 
The following BLAST results are available for this feature:
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2022-01-09
Analysis Name: NCBI peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 10
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A068U026 (HTH La-type RNA-binding domain-containing protein {ECO:0000259|PROSITE:PS50961})

HSP 1 Score: 322.398 bits (825), Expect = 2.431e-101
Identity = 209/408 (51.23%), Postives = 257/408 (62.99%), Query Frame = 0
 
Query:   88 APAAGVVMDTHSWPALS---KAPPKSASSD-------SVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRGTNNGGFIQPSS-----------PQPQAPAVEV---LPGKPGITTGESSSHKEGGPKGGFG------NDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRR-DQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGPHASPFIAPQPLP--VRPYPNHMVFPTDVPQPVFYVQSP--ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV 459
            A  AG VM   SWPALS   +A PKS+S         SVP S + +GM S S+ KQ I   ++ +S  NH    RQRS+KRG   GG   PSS           P P++  VE      GKP     +SS H+EGG +GG G      NDHQ QR NSF R  GG   PRGD S+HH  GGRR DQDRGNQDWN  +   G RD +MQ QR A R + RGPH +P     P P  VRP+   +V+P DVP  VFY+  P  ESLR  VP++P +A  P+++P  PDPQL  KI+NQIEYYFSNENLVKDT+LR+NMD+QGWVPIKLIA FKKV  LTDNI  IL++V+ S  VEV+ +++R+RN+WMKWIMPP   +S +SSPQ+  KS  DML   FQ + LDE++ 
Sbjct:  137 ATEAGPVMGAFSWPALSESTRASPKSSSESLKTLSDVSVPVSQA-TGMASPSAHKQGINANTNSSSTPNHAPYNRQRSMKRG---GGSGNPSSNASANGGPSQLPSPRSSGVETGSNNSGKPANPVSDSS-HREGGQRGGVGSQSHSGNDHQQQR-NSFKRGSGG---PRGDGSHHHGYGGRRGDQDRGNQDWNPNRSFGGGRDTHMQSQRVASRPFMRGPHPTPPPFMPPTPMPVRPFGTPIVYP-DVPSTVFYLPGPHPESLR-AVPMVPPMA--PLFFP-FPDPQLQTKIVNQIEYYFSNENLVKDTYLRQNMDDQGWVPIKLIASFKKVTQLTDNIQFILDSVRTSGAVEVEGEKVRRRNDWMKWIMPPSVQYSTISSPQSMQKSSQDMLALNFQSMALDEKTT 530
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1J6ING0 ((La-related protein 1c {ECO:0000313|EMBL:OIS99254.1}))

HSP 1 Score: 318.931 bits (816), Expect = 2.501e-100
Identity = 211/481 (43.87%), Postives = 281/481 (58.42%), Query Frame = 0
 
Query:   40 ESGNQDNSNAGGLKQ-VWGKPVNVNGSSGGAAVLSAAVATVDVSSRASEAPAAGVVMDTHSWPALS---KAPPKSASSDSVPTSHSGS-----GMGSISSSK-QVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEVLPGKPGIT-------TGESSSHKEGGPKGGFG------NDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGP-HASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSP--ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPGPFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV-HGHTDMF-KKSLSGEFSSQLQHSGGE 484
            ++GN D SN+   K+  W KP N      GAA +S               P  G V     WPALS   KA PK +SS+S+     GS     G G  SSS  Q   N ++PNS +NHV  TRQRS+KRG        + NGGF Q    Q Q+  VE++  K G +       + + +SH++GG  GGFG      N+HQ QR++  NRRG  G HPRGD +YH   GGRRDQ+RGNQDW    + +G+RD +MQ QR   R +  GP H SP   P  +PV PY   MV+ ++VP PV++   P  ++ R     MP ++  P  +  +PDPQL  KI+NQI+YYFSNENL+KDTFLRRNMDE GWV + LIAGFKKVM+LTDNI LIL+ +++STVVEVQ +++R+RN+W  WI+PP   + + SPQ+  KS  D L    Q V  D+ ++ HG+ + +  K  S E S+  +  G E
Sbjct:   86 DNGNSDGSNSNVAKKPAWNKPSN------GAAEVS---------------PVMGAVC----WPALSDSTKASPKLSSSESLKALSDGSVSVTQGTGMTSSSHGQANTNNANPNSTLNHVAPTRQRSMKRGGGYSNNNASANGGFSQQ---QGQSSEVEIVLNKSGKSGNAGADSSSKDNSHRDGGQWGGFGSQSHGGNEHQHQRNS--NRRGNVGPHPRGDGTYHQGYGGRRDQERGNQDWK-LHRGWGNRDAHMQPQRVPARPFMGGPPHTSPPFIPPTMPVHPYRAPMVY-SEVP-PVYFFPGPLPDTFR-----MPMLSPVPPVFFHMPDPQLQTKIVNQIDYYFSNENLIKDTFLRRNMDEHGWVSVALIAGFKKVMSLTDNIQLILDFMRSSTVVEVQGEKLRRRNDWNHWIIPPSVENSIISPQSPQKSTPDFLAENLQRVAFDDETIRHGNAEAYLSKPSSAELSTSSKQFGNE 528
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6T6T3 ((la-related protein 1C-like {ECO:0000313|RefSeq:XP_027073994.1}))

HSP 1 Score: 320.472 bits (820), Expect = 3.095e-100
Identity = 208/408 (50.98%), Postives = 256/408 (62.75%), Query Frame = 0
 
Query:   88 APAAGVVMDTHSWPALS---KAPPKSASSD-------SVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRGTNNGGFIQPSS-----------PQPQAPAVEV---LPGKPGITTGESSSHKEGGPKGGFG------NDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRR-DQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGPHASPFIAPQPLP--VRPYPNHMVFPTDVPQPVFYVQSP--ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV 459
            A  AG VM    WPALS   +A PKS+S         SVP S + +GM S S+ KQ I   ++ +S  NH    RQRS+KRG   GG   PSS           P P++  VE      GKP     +SS H+EGG +GG G      NDHQ QR NSF R  GG   PRGD S+HH  GGRR DQDRGNQDWN  +   G RD +MQ QR A R + RGPH +P     P P  VRP+   +V+P DVP  VFY+  P  ESLR  VP++P +A  P+++P  PDPQL  KI+NQIEYYFSNENLVKDT+LR+NMD+QGWVPIKLIA FKKV  LTDNI  IL++V+ S  VEV+ +++R+RN+WMKWIMPP   +S +SSPQ+  KS  DML   FQ + LDE++ 
Sbjct:  163 ATEAGPVMGAFPWPALSESTRASPKSSSESLKTLSDVSVPVSQA-TGMASPSAHKQGINANTNSSSTPNHAPYNRQRSMKRG---GGSGNPSSNASANGGPSQLPSPRSSGVETGSNNSGKPANPVSDSS-HREGGQRGGVGSQSHSGNDHQQQR-NSFKRGSGG---PRGDGSHHHGYGGRRGDQDRGNQDWNPNRSFGGGRDTHMQSQRVASRPFMRGPHPTPPPFMPPTPMPVRPFGTPIVYP-DVPSTVFYLPGPHPESLR-AVPMVPPMA--PLFFP-FPDPQLQTKIVNQIEYYFSNENLVKDTYLRQNMDDQGWVPIKLIASFKKVTQLTDNIQFILDSVRTSGAVEVEGEKVRRRNDWMKWIMPPSVQYSTISSPQSMQKSSQDMLALNFQSMALDEKTA 556
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7B921 (HTH La-type RNA-binding domain-containing protein {ECO:0000259|PROSITE:PS50961})

HSP 1 Score: 318.546 bits (815), Expect = 4.791e-100
Identity = 220/501 (43.91%), Postives = 285/501 (56.89%), Query Frame = 0
 
Query:   30 PPVISVVIGGESGNQDNSNAGGLKQ-VWGKPVNVNGSSGGAAVLSAAVATVDVSSRASEAPAAGVVMDTHSWPALS---KAPPKSASSDSVP-------TSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNT-RQRSIKRGTNNGG--------FIQPSSPQPQAPAVEV---LPGKPGITTGESSS----HKEGGPKGGFG------NDH-QPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPR-GPHASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSP-ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPGPFSPVSSPQARAKSGHDMLTGQFQGVTLDER-SVHGHTDMF-KKSLSGEFSSQLQHSGGEGDVHSGFE 492
            P   +V +  ES +  + N+   K+  W KP N      GA  +                   G VM   SWPALS   +A PKS SS+S+        +   GSG+ S SS KQ+I N ++P+   NHVT   RQ+ ++R   +          F+QP    P    VE+     GK G    +SSS    HKE G +GGFG      NDH Q Q+ +S  RRG GG HPRGD SYHH+ GGRRDQDRGN DWN   +++ SRD +MQ  R   R Y R  PH+S    P P       N M +P D+P P+ Y+  P ESLR V PI+  +  HPM++P +PD QLH KI+ QI+YYFSNENL+KD FLR+NMD+QGWVPIKLIAGFKKV  LTD+I LIL  V+ STVVEVQ D++R+RN+W KWI+ P     VSSPQ   +S +D L    Q V+L+E+ +  G  + F  +S SG+ +SQ Q S  EG   + F+
Sbjct:   89 PEDCAVEVQAESSDNGSGNSNAAKKPAWNKPSN------GAVEI-------------------GPVMGAVSWPALSESTRASPKSTSSESLKALSDGSVSISQGSGIASSSSQKQIIPNNANPSLTANHVTPPGRQKFMRRSGGSSSGSVSANGGFLQP----PPVSVVEMPSNNAGKSGSVLLDSSSRDHTHKETGHRGGFGSQSHSGNDHTQTQQRHSL-RRGNGGPHPRGDGSYHHNYGGRRDQDRGNHDWN-PHRNFNSRDAHMQPHRVVPRSYMRPSPHSSAPFIPPPPVPVRPYNPMGYP-DMPPPLIYLHPPPESLRSV-PIVAPIPPHPMFFP-VPDTQLHAKIVTQIDYYFSNENLIKDAFLRQNMDDQGWVPIKLIAGFKKVAQLTDSIQLILEVVRTSTVVEVQGDKVRRRNDWKKWIIGPT----VSSPQPLGRSSYDTLAANLQSVSLEEKNNKQGQAEAFPSRSSSGDLNSQSQPSSSEGTGQATFQ 551
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6TIE4 ((la-related protein 1C-like {ECO:0000313|RefSeq:XP_027077790.1}))

HSP 1 Score: 306.99 bits (785), Expect = 4.468e-95
Identity = 206/407 (50.61%), Postives = 249/407 (61.18%), Query Frame = 0
 
Query:   88 APAAGVVMDTHSWPALS---KAPPKSASSD-------SVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRGTNNGGFIQPSS-----------PQPQAPAVEVLPGKPGITTG--ESSSHKEGGPKGGFG------NDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRR-DQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGPHASPFIAPQPLP--VRPYPNHMVFPTDVPQPVFYVQSP--ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV 459
            A  AG VM   SWPALS   +A PKS+S         SVP S + +GM S S+ KQ I   ++ +S  NH    RQRS+KRG   GG   PSS           P P++  VE      G T      SSH+EGG +GG G      NDHQ QR NSF R  GG   PRGD S+HH  GGRR DQDRGNQDWN  +   G RD +MQ QR A R + RGPH +P     P P  VRP+   +V+P DVP  VFY+  P  ESLR V    P V     ++ P PDPQL  KI+NQIEYYFSNENLVKDT+LR+NMD+QGWVPIKLIA FKKV  LTDNI LIL++V+ S  VEV+ +++R+RN+W KWIMPP   +S +SSPQ+  KS  DML   FQ + LDE++ 
Sbjct:  161 ATEAGPVMGAFSWPALSESTRASPKSSSESLKTLSDVSVPVSQA-TGMASPSAHKQGINANTNSSSTPNHAPYNRQRSMKRG---GGSGNPSSNASANGGPSQLPSPRSSGVETGSNNSGKTANPVSDSSHREGGQRGGVGSQSHSGNDHQQQR-NSFKRGSGG---PRGDGSHHHGYGGRRGDQDRGNQDWNPNRSFGGGRDTHMQSQRVASRPFIRGPHPTPPPFMPPTPMPVRPFGTPIVYP-DVPSTVFYLPGPHPESLRAV----PMVPPMAPFFFPFPDPQLQTKIVNQIEYYFSNENLVKDTYLRQNMDDQGWVPIKLIASFKKVTQLTDNIQLILDSVRTSGAVEVEGEKVRRRNDWTKWIMPPSVQYSTISSPQSMQKSSQDMLALNFQSMALDEKTA 554
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0DIF7 ((Winged-helix DNA-binding transcription factor family protein {ECO:0000313|EMBL:GFS35805.1}))

HSP 1 Score: 303.908 bits (777), Expect = 3.202e-94
Identity = 198/435 (45.52%), Postives = 264/435 (60.69%), Query Frame = 0
 
Query:   94 VMDTHSWPALS---KAPPKSASSDSVPTSH----SGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEVLPGKPGITTGESSS----HKEGGPKGGFGN-----DHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGP---HASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSP---ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQAST-----------VVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSVHGHTDMFK-KSLSGEFSSQLQHSGGEG 485
            VM   SWPALS   +A PKSASSDS+         G+G+ S SS KQVI + ++P+   NHVT T Q+S+KR         T NGG   P  P      +    GK G +  E+SS    HKEGG +GG+G+     + Q Q  NS+ RRG G  HPRGD SYHH+ GGRR+QDRGN   N + +S+  RD ++Q QR   RG+  GP    ++PFI P P+ +RPY N MV+P +V  P+ YVQ+P   +SLRGV    P VA  P  + P+PDP L  KI+NQI+YYFSNENL+KDTFLRRNM E GWVPI+LIA FKKVM+LT NI LIL+A+++S            ++     ++RKRN+W +WIM P   F  + SPQ+   S  D+   + Q ++L++ +  G  + F  +SLS + +SQ + S GEG
Sbjct:  109 VMGAVSWPALSESTRASPKSASSDSMKDGSVLVSQGTGVSSSSSQKQVITDNTNPSLAPNHVTLTSQKSMKRSGGSTSGSVTANGGLSLPVPPPSLVVEIPNNAGKLGSSVPETSSRDHTHKEGGQRGGYGSQSHDGNDQIQHRNSY-RRGNGTPHPRGDGSYHHNYGGRREQDRGNHGRN-SHRSFNGRDAHVQPQRLGPRGF-MGPPPRSSTPFIPP-PVAMRPYGNPMVYP-EVVAPMMYVQAPPPPDSLRGV----PMVAPMPPMFYPVPDPHLPTKIVNQIDYYFSNENLIKDTFLRRNMGEDGWVPIELIASFKKVMDLTTNIQLILDAMRSSEVVEVEVEMQDGLIPFPCGKLRKRNDWRRWIMIPSVQFPTIPSPQSLGSSSRDVFATELQSLSLEKTNKQGRDEAFLGRSLSSDLNSQSKVSTGEG 534
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A314L9G3 ((La-related protein 1c {ECO:0000313|EMBL:OIT38310.1}))

HSP 1 Score: 303.138 bits (775), Expect = 4.121e-94
Identity = 212/475 (44.63%), Postives = 273/475 (57.47%), Query Frame = 0
 
Query:   53 KQVWGKPVNVNGSSGGAAVLSAAVATVDVSSRASEAPAAGVVMDTHSWPALS---KAPPKSASSDSVPTSHSGS-----GMGSISSS-KQVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEVLP---GKPGITTGESSS----HKEGGPKGGF------GNDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGP-HASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSPESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV-HGHTDMFKK-SLSGEFSSQLQHSGGEGDVHSGFEH 493
            KQ W KP N      GAA +S               P  G V    SWPALS   KA PKS SSDS+     GS     G    SSS +Q   N ++PN   NHV  TRQRS+KRG        + NGGF Q    Q Q   VE++    GK G    ESSS    H++GG  GGF      GN+HQ QR++  NRRG  G HPRGD +Y+H  GGRRDQ+RGNQDW    + +G+RD  MQ  R   R +  GP H SP   P  +PV+PY   MV+P   P   F    P+S R     MP ++  P ++  +PDPQ+H KI+NQI+YYFS+ENL+KDTFLRRNMDEQGWVP+ LIAGFKKVM LTDNI LIL+ +++ST VEVQ +++R+RN+W +W++PP    S ++ PQ+  KS  D L    Q V  D++++ HG  + +   S S E S+  +  G E    +G +H
Sbjct:  115 KQAWSKPSN------GAAEVS---------------PVMGAV----SWPALSESTKASPKSPSSDSLKALSDGSVSVSQGTEMTSSSHRQANTNNANPNLISNHVGPTRQRSMKRGGGYSNHNASANGGFPQQ---QAQGSEVEIVTNNSGKSGNFGAESSSRDTSHRDGGQSGGFGSQSHGGNEHQHQRTS--NRRGNVGPHPRGDGTYNHGYGGRRDQERGNQDWK-PHRGWGNRDAPMQPHRVPARPFMGGPPHTSPPFIPPHMPVQPYRAPMVYPEVAPVYYFPGPLPDSFR-----MPMLSPVPPFFFHVPDPQMHTKIVNQIDYYFSDENLIKDTFLRRNMDEQGWVPVTLIAGFKKVMQLTDNIQLILDVMRSSTAVEVQGEKLRRRNDWKRWLIPPSVQNSTMAGPQSPQKSSPDFLAENLQRVAFDDKTIRHGTAEAYLSISSSAELSTPSERFGNEMGGQAGAQH 553
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0E3B1 ((Winged-helix DNA-binding transcription factor family protein {ECO:0000313|EMBL:GFY80409.1}))

HSP 1 Score: 301.982 bits (772), Expect = 9.295e-94
Identity = 205/450 (45.56%), Postives = 271/450 (60.22%), Query Frame = 0
 
Query:   94 VMDTHSWPALS---KAPPKSASSDSVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEV---LPGKPGITTGESSS----HKEGGPKGGFGN-----DHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGY---PRGPHAS-PFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSPESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQAST-----------VVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSVHGHTDMF-KKSLSGEFSSQLQHSGGEGD----VHSGFEHKSSAGS 499
            VM   SWPALS   +A PKSA SDS+     GS    + S KQVI + ++P+   NH T T Q+S+K          T NGG  QP  P P A  VE+     GKPG +  E+SS    HKEGG +GG+G+     + Q Q  NS+ RRG G  HPRGD SYHH+ GGRR+QD GN   N + +S+  RD ++Q QR   RG+   P  PH+S PFI PQ + +RPY N MV+P   P  + YVQ+P+S RGV  + P     PM+YP  PDP L  KIMNQI+YYFSNENL+KDTFLR+NMDE GWVPI+LIA FKKVM+LT NI LIL+A+++S            +V     ++RKR++W +WI+ P   FS + SPQ+   S HD    + Q ++L++ +  G  + F  +SLSG+ + Q + + GEG     V +G  H +SA S
Sbjct:  114 VMGAVSWPALSESTRASPKSAPSDSM---KDGS---VLVSQKQVITDNANPSLAPNHATLTSQKSMKSSGGSASESVTANGGLSQPV-PTP-ALVVEIPSNNAGKPGSSVPETSSRDHTHKEGGQRGGYGSQSHGGNDQIQHRNSY-RRGYGTPHPRGDGSYHHNYGGRREQDHGNHGRN-SHRSFNGRDAHVQPQRVGPRGFMGPP--PHSSTPFIPPQ-VAMRPYGNPMVYPEVAP--MMYVQAPDSHRGVSMVAPM---QPMFYP-FPDPHLPTKIMNQIDYYFSNENLIKDTFLRQNMDENGWVPIELIASFKKVMDLTTNIQLILDAMRSSKVVEVEVEMQVGLVPFPRGKLRKRDDWRRWIIVPSVQFSTIPSPQSLGSSSHDAFATELQSLSLEKTNKQGRDEAFLGRSLSGDLNRQSKVTTGEGTSQAAVQAGSNHSTSARS 544
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6R5X1 ((La-related protein like {ECO:0000313|EMBL:PSS21409.1}))

HSP 1 Score: 302.368 bits (773), Expect = 1.131e-93
Identity = 204/454 (44.93%), Postives = 272/454 (59.91%), Query Frame = 0
 
Query:   94 VMDTHSWPALS---KAPPKSASSDSVP------TSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEVLP----GKPGITTGESSS----HKEGGPKGGFGN-----DHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGP---HASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSP---ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQAST-----------VVEVQNDRIRKRNEWMKWIMPPG-PFSPVSSPQARAKSGHDMLTGQFQGVTLDERSVHGHTDMFK-KSLSGEFSSQLQHSGGEGDVHSGFEHKSSAG 498
            +M   SWPALS   +A PKSASSDS+       +  +G    S SS KQVI + ++P+   NHVT T Q+S+KR         T NGG    S P P    V  +P    GK G +  E+SS    HKEGG +GG+G+     + Q Q  NS+ RRG G  HPRGD SYHH+ GGRR+QDRGN   N + +S+  RD ++Q QR   RG+  GP    ++PFI P P+ +RPY N MV+P +V  P+ YVQ+P   +SLRGV    P VA  P  + P+PDP L  KI+NQI+YYFSNENL+KDTFLRRNMDE GWVPI+LIA FKKVM+LT NI LIL+A+++S            ++     ++RKRN+W +WIM P   F  + SPQ+   S  D+   + Q ++L++ +  G  + F  +SLSG+ +SQ + S GEG      + K S G
Sbjct:  109 LMGAVSWPALSESTRASPKSASSDSMKDGSVLVSQGTGISSSSSSSQKQVITDNTNPSLAPNHVTLTSQKSMKRSGGSTSGSVTANGGL---SLPVPPLSLVVEIPSNNAGKLGSSVPETSSRDHTHKEGGQRGGYGSQSHDGNDQIQHRNSY-RRGNGTPHPRGDGSYHHNYGGRREQDRGNHGRN-SHRSFNGRDAHVQPQRLGPRGF-MGPPPRSSTPFIPP-PVAMRPYGNPMVYP-EVVAPMMYVQAPPPPDSLRGV----PMVAPMPPMFYPVPDPHLPTKIVNQIDYYFSNENLIKDTFLRRNMDEDGWVPIELIARFKKVMDLTTNIQLILDAMRSSEVVEVEVEMQDGLIPFPCGKLRKRNDWRRWIMIPSVQFPTIPSPQSLGSSSCDVFATELQSLSLEKTNKQGRDEAFLGRSLSGDLNSQSKVSTGEGTRLVNSQSKVSTG 550
[Close]
BLAST of XM_017386909.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1S4BFR7 ((la-related protein 1C-like {ECO:0000313|RefSeq:XP_016487722.1}))

HSP 1 Score: 301.597 bits (771), Expect = 1.928e-93
Identity = 205/479 (42.80%), Postives = 273/479 (56.99%), Query Frame = 0
 
Query:   40 ESGNQDNSNAGGLKQ-VWGKPVNVNGSSGGAAVLSAAVATVDVSSRASEAPAAGVVMDTHSWPALSKAPPKSASS----------DSVPTSHSGSGMGSISSSKQVIGNTSSPNSNVNHVTNTRQRSIKRG--------TNNGGFIQPSSPQPQAPAVEVLPGKPGITTGESSS----HKEGGPKGGFG------NDHQPQRSNSFNRRGGGGQHPRGDASYHHSSGGRRDQDRGNQDWNHTQQSYGSRDNYMQQQRGAHRGYPRGP-HASPFIAPQPLPVRPYPNHMVFPTDVPQPVFYVQSP--ESLRGVVPIMPQVAAHPMYYPPIPDPQLHVKIMNQIEYYFSNENLVKDTFLRRNMDEQGWVPIKLIAGFKKVMNLTDNILLILNAVQASTVVEVQNDRIRKRNEWMKWIMPPGPFSPVSSPQARAKSGHDMLTGQFQGVTLDERSV-HGHTDMF-KKSLSGEFSSQLQHSGGE 484
            ++GN D+SN+   K+  W KP N      GAA +S               P  G V     WPALS +   S  S          D   +   G+GM S SS  Q   N ++PNS +NHV  TRQRS+KRG        + NGGF Q      +A  V    GK G +  +SSS    H++GG  GGFG      ++HQ QR++  NRRG  G HPRGD +YH   GGRRDQ+RGNQDW    + +G+RD +MQ QR   R +  GP H SP   P  +PV PY   MV+ ++VP PV++   P  ++ R     MP ++  P  +  +PDPQL  KI+NQI+YYFSNENL+KDTFLRRNMDE GWV + LIAGFKKVM+LTDNI LIL+ +++STVVEVQ +++R+RN+W  WI+PP   +   SPQ+  KS  D L    Q V  D+ ++ HG+ + +  +  S E S+  +  G E
Sbjct:  111 DNGNSDDSNSNVSKKPAWNKPSN------GAAEVS---------------PVMGAVC----WPALSDSTKASPKSSSSESLKALSDGSVSVTQGTGMAS-SSHGQANTNNANPNSTLNHVAPTRQRSMKRGGGYSNHNASANGGFSQQQGQSSEAEIVFNKSGKSGNSGADSSSKDNSHRDGGQWGGFGSQSHGGHEHQHQRNS--NRRGNVGPHPRGDGTYHLGYGGRRDQERGNQDWK-PHRGWGNRDAHMQPQRVPARPFMGGPPHTSPPFIPPTMPVHPYRAPMVY-SEVP-PVYFFPGPLPDTFR-----MPMLSPVPPVFFHMPDPQLQTKIVNQIDYYFSNENLIKDTFLRRNMDEHGWVSVMLIAGFKKVMSLTDNIQLILDVMRSSTVVEVQGEKLRRRNDWNHWIIPPSVQNSTISPQSPQKSSPDSLAENLQRVAFDDETIRHGNAEAYLSRPSSAELSTPSKQFGNE 553
Match NameStatsDescription
A0A068U026E-Value: 2.431e-101, PID: 51.23HTH La-type RNA-binding domain-containing protein ... [more]
A0A1J6ING0E-Value: 2.501e-100, PID: 43.87(La-related protein 1c {ECO:0000313|EMBL:OIS99254.... [more]
A0A6P6T6T3E-Value: 3.095e-100, PID: 50.98(la-related protein 1C-like {ECO:0000313|RefSeq:XP... [more]
A0A5B7B921E-Value: 4.791e-100, PID: 43.91HTH La-type RNA-binding domain-containing protein ... [more]
A0A6P6TIE4E-Value: 4.468e-95, PID: 50.61(la-related protein 1C-like {ECO:0000313|RefSeq:XP... [more]
A0A7J0DIF7E-Value: 3.202e-94, PID: 45.52(Winged-helix DNA-binding transcription factor fam... [more]
A0A314L9G3E-Value: 4.121e-94, PID: 44.63(La-related protein 1c {ECO:0000313|EMBL:OIT38310.... [more]
A0A7J0E3B1E-Value: 9.295e-94, PID: 45.56(Winged-helix DNA-binding transcription factor fam... [more]
A0A2R6R5X1E-Value: 1.131e-93, PID: 44.93(La-related protein like {ECO:0000313|EMBL:PSS2140... [more]
A0A1S4BFR7E-Value: 1.928e-93, PID: 42.80(la-related protein 1C-like {ECO:0000313|RefSeq:XP... [more]
back to top
Analysis: 
NameDescription
Carrot Genome Assembly DCARv2

An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4.

There are a few different naming schemes for this assembly. First there is the
Authors' original naming scheme: Sequences with DCARv2 prefix are the original assembly as submitted to NCBI. These are labelled DCARv2_Chr1 through DCARv2_Chr9 for the chromosome pseudomolecules, DCARv2_MT and DCARv2_PT for the organellar assemblies, DCARv2_B1 and up for unincorporated superscaffolds, DCARv2_S26.1 and up for unincorporated scaffolds, and DCARv2_C10542132 and up for unincorporated contigs. A file with sequences using this naming scheme can be downloaded from the File: link below.
These sequences can be viewed in JBrowse here.

Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0

LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926.

Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence.

RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records.

The NCBI Sequence report lists the correspondences between the various naming methods

Link to the LNRQ01000000.1 master record at NCBI

Raw Reads: Link to SRA accessions used for the genome assembly

This genome is available in the CarrotOmics Blast Search
NCBI Daucus carota subsp. sativus Annotation Release 100

The RefSeq genome records for Daucus carota subsp. sativus were annotated by the NCBI Eukaryotic Genome Annotation Pipeline, an automated pipeline that annotates genes, transcripts and proteins on draft and finished genome assemblies. This report presents statistics on the annotation products, the input data used in the pipeline and intermediate alignment results.

View the full report at https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Daucus_carota_subsp._sativus/100/

Data from this analysis can be viewed in JBrowse here.
NCBI peptide blastp to SwissProt and TrEMBL without DCAR
This analysis is a blastp search of all of the NCBI Daucus carota subsp. sativus Annotation Release 100 polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove DCAR gene predictions from DCAR V1.0 Gene Prediction.