MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVS
KGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEA
ADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSK
NQNKSINHSDDEEINDDEKLENFPKSGNNASVHFLARDTLDKKDDSEKGL
EEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRH
RGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPD
VHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRRHDSEGSDY
DDEIDDKSRWRGGLDSESYRRDETPERVHHKAKLVSRREESESSESDSRE
DTKKKQLESRNAGYKDYKGKEVESRNAXSDAISGGDRRKMKDDNDYKERK
HNTVEVDERERKRKYNIDEDDEREKKHRRGEDDKLRKEIKDEEDRHGKKH
KRDEEEEERYDAGKGDYRGRHEREQEERHDTRSLQEERPPSHQSKRARHD
DSRSIERSHDNKKRDDRHGDDRREDRGRGGDRRDDRGRGGDGRDDRGRGG
DGREDRGRGGDRRFRR*
| Relationships |
|---|
| The polypeptide, DCAR_004521, derives from mRNA, DCAR_004521. |
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
Match: A0A103XTD4 (cwf21 domain-containing protein {ECO:0000259|SMART:SM01115})
HSP 1 Score: 243.817 bits (621), Expect = 4.286e-69
Identity = 152/273 (55.68%), Postives = 187/273 (68.50%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLST-EPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVH-DKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASVHFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSS--------SDTDDSNSSRENVKRSKKKYEKTRVRR-HRGGSSSDSDSDS 262
MYNGIGLQTARGSGTNGYIQ+NKFFV+PK+NK+ T G+ QG AGV++ PNKDILEHDRKRQIQLKLV+LEDKL+DQGYTD+EIA KL+EAR LEAA +E G +AVV+H D++VSDTQTHQ+AARKEKQMETL+ AL I + K + SDDE+I+D +K N K L +DT KD GL+E + + +SK R+ +S DT DS+SSRE VK S+KK +K+R R H S SDSD D+
Sbjct: 1 MYNGIGLQTARGSGTNGYIQSNKFFVKPKTNKVLTGNAGGYEAGQGIAGVTRKPNKDILEHDRKRQIQLKLVILEDKLVDQGYTDDEIAQKLDEARTTLEAALASEDAGGATAVVIHSDQKVSDTQTHQVAARKEKQMETLKNALGIVHED-DMKKYVPASDDEKIDDGDKARNNKKYDPRVDGR-LEKDTKVAKD----GLDE---LKHYKKKTSKRREASSDSESDSDSYGDT-DSDSSREVVKASRKKPQKSRGRSDHDEVSESDSDVDT 263
Match: A0A2K2A715 (cwf21 domain-containing protein {ECO:0000259|Pfam:PF08312})
HSP 1 Score: 243.432 bits (620), Expect = 3.647e-68
Identity = 165/346 (47.69%), Postives = 215/346 (62.14%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASV----HFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPDVHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRR 342
MYNGIGLQT RGSGTNGYIQTNKFFVRP++ K++ + KGF +QGT G++K PNK+ILEHDRKRQIQLKLVVLEDKL++QGYTD EI KL+EAR+ LEAA +E G++A D +VSDTQ+HQIAARKEKQMETLRAAL I S+ + I+ +DDE N +N P G+ S FL R+ KK +E LE E + + + K +K+ D+ + SR + K E++R RRHR D SD+ S G HAK +RKKH R+ + H T SD + + + ++H +S +DDE+D + S+K KKSRR
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFVRPRTGKVAHDTKGFEGDQGTGGITKKPNKEILEHDRKRQIQLKLVVLEDKLIEQGYTDAEIEEKLQEARKTLEAA--SEESGGLTAS---DTKVSDTQSHQIAARKEKQMETLRAALGIRM-SEPDEQGIDGTDDELRN---SRKNDPGEGSKWSEKHEHAFLDREFTRKKHVAED-LEVEKDENKKGVKALKNKKKE-----DEFDESRHHRK------EESRKRRHR-----DDSSDTDSCGKHAKGSRKKHSKGRRGRDHETESDSDHGKKKRTSTKHKKSRRHDSGSDDSATDDETDSDHGKKKSRISEKLKKSRR 320
Match: A0A6M2EXD2 (cwf21 domain-containing protein {ECO:0000259|Pfam:PF08312})
HSP 1 Score: 243.432 bits (620), Expect = 3.977e-68
Identity = 166/346 (47.98%), Postives = 215/346 (62.14%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASV----HFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPDVHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRR 342
MYNGIGLQT RGSGTNGYIQTNKFFVRPK+ K++ + KGF +QGT G++K PNK+ILEHDRKRQIQLKLVVLEDKL++QGYTD EI KL+EAR+ LEAA +E G++A D +VSDTQ+HQIAARKEKQMETLRAAL I S+ + I+ +DDE N +N P G+ S FL R+ KK +E LE E + + + K +K+ D+ + SR + K E++R RRHR S SD+ S G HAK +RKKH R+ + H T SD + + + ++H +S +DDE+D + S+K KKSRR
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFVRPKTGKVAHDTKGFEGDQGTGGITKKPNKEILEHDRKRQIQLKLVVLEDKLIEQGYTDAEIEEKLQEARKTLEAA--SEESGGLTAS---DTKVSDTQSHQIAARKEKQMETLRAALGI-RMSEPDEQGIDGTDDELRN---SRKNDPGEGSKWSEKREHAFLDREFTRKKHVAED-LEVEKDENKKGVKALKNKKKE-----DEFDESRHHRK------EESRKRRHRVDS-----SDTDSSGKHAKGSRKKHSKGRRGRDHETESDSDHGKKKRTSTKHKKSRRHDSGSDDSATDDETDSDHGKKKSRISEKLKKSRR 320
Match: A0A5E4EGR8 ((Full=PREDICTED: serine/arginine repetitive matrix {ECO:0000313|EMBL:VVA14985.1}))
HSP 1 Score: 243.432 bits (620), Expect = 6.429e-68
Identity = 155/310 (50.00%), Postives = 196/310 (63.23%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNN-------ASVH-FLARDTLDKKDDSEKGLEEED-----IVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDES 297
MYNGIGLQT RGSGTNGYIQTNKFF++ ++ K++ +GF D+QG GV K N+DILEHDRKRQIQLKLVVLEDKL+DQG+TD EIA KLEEAR+ LEAA +E G +AVV+ DK+VSDTQTHQIAARKEKQMETLRAAL + S + D +E++D L++ K+G N S H FL RD KK EK E+D + S R + RK+ D+ D+++S K KKK + RG SSSD D DS D V K K HN R+ + + +++ SDD++
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFIKSRTGKVADSSRGFDDDQGMGGVMKKANRDILEHDRKRQIQLKLVVLEDKLIDQGFTDAEIAEKLEEARKTLEAAAASEELGGSTAVVISDKKVSDTQTHQIAARKEKQMETLRAALGLASS------DLTEKDTDEVDDG--LKSSRKNGPNDDGRPQERSEHAFLDRDYSRKKHGEEKQKAEKDDKKKSVKESRRNKKEESRKKRHKYDSSDTDNSGSPPKADKKK-------KRRGTSSSDED-DSEVD-VGKKHKVAKKHNKRRNENTDDSESATSDDDA 293
Match: A0A2J6KNK8 (cwf21 domain-containing protein {ECO:0000259|SMART:SM01115})
HSP 1 Score: 239.965 bits (611), Expect = 8.782e-68
Identity = 151/297 (50.84%), Postives = 197/297 (66.33%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLST-EPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVH-DKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASVHFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDD 295
MYNGIGLQTARGSGTNGYIQ+NKFFV+P++NK+ T G+ QG AGV++ PNKDILEHDRKRQIQLKLVVLEDKL+DQGYTD+EIA KL+EARR LEAA +E G +AVV+H D++VSDTQTHQ+AARK+KQME L+ AL I + + K SDDE+ NDD++ +N N+ L +D K ++ + +R +SS +S SDT+ ++S E VK S+KK++K++ R DS+SDS D +K RK N +K R + SDSD+
Sbjct: 1 MYNGIGLQTARGSGTNGYIQSNKFFVKPRTNKVLTGNSGGYEAGQGIAGVTRKPNKDILEHDRKRQIQLKLVVLEDKLVDQGYTDDEIAEKLDEARRTLEAALASEDAGGATAVVMHSDQKVSDTQTHQVAARKQKQMEALKNALGIVHEDERKKKYALVSDDEKSNDDDEAKN-----NDGK---LEKDIKVGKHGIDELKNYKKKTSKKREVSS-----DSESDTNTNSSEEEPVKVSRKKHQKSKPR-------VDSESDSDVDVRRSK--RKSSSNKHKKDRKHESDDSDSDE 275
Match: A0A6N2L081 (cwf21 domain-containing protein {ECO:0000259|Pfam:PF08312})
HSP 1 Score: 242.662 bits (618), Expect = 1.580e-67
Identity = 173/360 (48.06%), Postives = 222/360 (61.67%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASV----HFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPDVHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRRH-DSEGSDYDDEID 355
MYNGIGLQT RGSGTNGYIQTNKFFVRP++ K++ + KGF +QGT G+SK PNK+ILEHDRKRQIQLKLVVLEDKL++QGYTD EI KL+EAR+ LEAA +E G++A D +VSDTQ+HQIAARKEKQMETLRAAL I S+ + I+ +DDE N +N P G+ S FL R+ KK +E LE E + I + K +K+ D+ + SR + K E++R RRH+ S SD+ S G HAK +RKKH R+ + H T SD + + + K+H +S +DDE+D + S+K KKSRR DS+ S DE D
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFVRPRTGKVAHDTKGFEGDQGTGGISKKPNKEILEHDRKRQIQLKLVVLEDKLIEQGYTDAEIEEKLQEARKTLEAA--SEDSGGLTAS---DTKVSDTQSHQIAARKEKQMETLRAALGIR-MSEPDEQGIDGTDDELRN---SRKNDPGEGSKWSEKREHAFLDREFTRKKHVTED-LEVEKDENKKGIKALKNKKK------DEFDESRRHRK------EESRKRRHQVDS-----SDTDSSGKHAKGSRKKHSKGRRGRDHETESDSDHVKKKRTLTKHKKSKRHDSESDDSATDDETDSDHGKKKSRISEKIKKSRRSGDSDDSATGDETD 333
Match: A0A4U5PQZ5 (cwf21 domain-containing protein {ECO:0000259|SMART:SM01115})
HSP 1 Score: 241.506 bits (615), Expect = 1.650e-67
Identity = 165/346 (47.69%), Postives = 215/346 (62.14%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASV----HFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPDVHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRR 342
MYNGIGLQT RGSGTNGYIQTNKFFVRPK+ K++ + KGF +QGT G++K PNK+ILEHDRKRQIQLKLVVLEDKL++QGYTD EI KL+EAR+ LEAA +E G++A D +VSDTQ+HQIAARKEKQMETLRAAL I S+ + I+ +DDE N +N P G+ S FL R+ + KK +E LE E + + + K +K+ D+ SR + K E++R RRH+ S SD+ S G HAK +RKKH R+ + H T SD + + + ++H +S +DDE+D + S+K KKSRR
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFVRPKTGKVAHDTKGFEGDQGTGGITKKPNKEILEHDRKRQIQLKLVVLEDKLIEQGYTDAEIEEKLQEARKTLEAA--SEESGGLNAS---DTKVSDTQSHQIAARKEKQMETLRAALGI-RMSEPDEQGIDGTDDELRN---SRKNDPGEGSKWSEKREHAFLDREFIRKKHVAED-LEVEKDENKKGVKALKNKKKE-----DEFEESRHHRK------EESRKRRHQVDS-----SDTDSSGKHAKGSRKKHSKGRRGRDHETESDSDHGKKKRTSTKHKKSRRHDSGSDDSATDDETDSDHGKKKSRISEKLKKSRR 320
Match: A0A5N5MDE6 (cwf21 domain-containing protein {ECO:0000259|Pfam:PF08312})
HSP 1 Score: 242.276 bits (617), Expect = 1.868e-67
Identity = 172/360 (47.78%), Postives = 221/360 (61.39%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNNASV----HFLARDTLDKKDDSEKGLEEEDIVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSRQKKRHNTRQASDSDDESDPDVHNTRQKKHHITRQESDSDDESDPGVQNASRKSSQKYKKSRRH-DSEGSDYDDEID 355
MYNGIGLQT RGSGTNGYIQTNKFFVRP++ K++ + KGF +QGT G+SK PNK+ILEHDRKRQIQLKLVVLEDKL++QGYTD EI KL+EAR+ LEAA +E G++A D +VSDTQ+HQIAARKEKQMETLRAAL I S+ + I+ +DDE N +N P + S FL R+ KK +E LE E + I + K +K+ D+ + SR + K E++R RRH+ S SD+ S G HAK +RKKH RQ + H T SD + + + K+H +S +DDE++ + S+K KKSRR DS+ S DE D
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFVRPRTGKVAHDTKGFEGDQGTGGISKKPNKEILEHDRKRQIQLKLVVLEDKLIEQGYTDAEIEEKLQEARKTLEAA--SEDSGGLTAS---DTKVSDTQSHQIAARKEKQMETLRAALGIR-MSEPDEQGIDGTDDELRN---SRKNDPGEASKWSEKREHAFLDREFTRKKHVTED-LEVEKDENKKGIKALKNKKK------DEFDESRRHRK------EESRKRRHQVDS-----SDTDSSGKHAKGSRKKHSKGRQGRDHETESGSDHVKKKRTLTKHKKSKRHDSESDDSATDDETNSDHGKKKSRISEKIKKSRRSGDSDDSATGDETD 333
Match: A0A5B7C0K1 ((Putative pre-mRNA-splicing factor CWC21-like {ECO:0000313|EMBL:MPA73826.1}) (Fragment))
HSP 1 Score: 223.402 bits (568), Expect = 2.904e-67
Identity = 118/172 (68.60%), Postives = 139/172 (80.81%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTE--PKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKA-EREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKI-TSPSKNQNKSIN--HSDDEEIND 166
MYNGIGLQTARGSGTNG++QTNKFFV+PKS K++ + KGF ++QGTAGV+K PNKDIL+HDRKRQIQLKLVVLEDKL+DQGYTD EI+ KLEEARR L+AAD A E +G A+ V D++VSDTQTHQIAA KE+Q+ET RAAL I TS NQ K N +S+ EE D
Sbjct: 2 MYNGIGLQTARGSGTNGHVQTNKFFVKPKSGKVAVDNTGKGFGEDQGTAGVTKKPNKDILDHDRKRQIQLKLVVLEDKLIDQGYTDAEISEKLEEARRNLDAADAAEESTSGAMAIHVADRKVSDTQTHQIAAWKEQQLETFRAALGIGTSEFNNQKKHSNTPYSNSEESGD 173
Match: M5XQ36 (cwf21 domain-containing protein {ECO:0000259|SMART:SM01115})
HSP 1 Score: 241.121 bits (614), Expect = 3.446e-67
Identity = 152/293 (51.88%), Postives = 185/293 (63.14%), Query Frame = 0
Query: 1 MYNGIGLQTARGSGTNGYIQTNKFFVRPKSNKLSTEPKGFHDNQGTAGVSKGPNKDILEHDRKRQIQLKLVVLEDKLLDQGYTDEEIAPKLEEARRVLEAADKAEREAGVSAVVVHDKRVSDTQTHQIAARKEKQMETLRAALKITSPSKNQNKSINHSDDEEINDDEKLENFPKSGNN-------ASVH-FLARDTLDKKDDSEKGLEEED-----IVPSERILSSKLRKENSSSDTDDSNSSRENVKRSKKKYEKTRVRRHRGGSSSDSDSDSGSDGVHAKRNRKKHHNSR 280
MYNGIGLQT RGSGTNGYIQTNKFF++ ++ K++ +GF D+QG GV K N+DILEHDRKRQIQLKLVVLEDKL+DQG+TD EIA KLEEAR+ LEAA +E G +AVV+ DK+VSDTQTHQIAARKEKQMETLRAAL + S + D +E++D L++ K+G N S H FL RD KK EK E+D + S R + RK+ D+ D+++S K KKK + RG SSSD D DS D V K K HN R
Sbjct: 1 MYNGIGLQTPRGSGTNGYIQTNKFFIKSRTGKVADSSRGFDDDQGMGGVMKKANRDILEHDRKRQIQLKLVVLEDKLIDQGFTDTEIAEKLEEARKTLEAAAASEELGGSTAVVISDKKVSDTQTHQIAARKEKQMETLRAALGLASS------DLTEKDTDEVDDG--LKSSRKNGPNDDGRPQERSEHAFLDRDYSRKKHGEEKQKAEKDDKKKSVKESRRNKKEESRKKRHKYDSSDTDNSGSPPKADKKK-------KRRGTSSSDED-DSEVD-VGKKHKVAKKHNKR 276
| Match Name | Stats | Description |
|---|---|---|
| A0A103XTD4 | E-Value: 4.286e-69, PID: 55.68 | cwf21 domain-containing protein {ECO:0000259|SMART... [more] |
| A0A2K2A715 | E-Value: 3.647e-68, PID: 47.69 | cwf21 domain-containing protein {ECO:0000259|Pfam:... [more] |
| A0A6M2EXD2 | E-Value: 3.977e-68, PID: 47.98 | cwf21 domain-containing protein {ECO:0000259|Pfam:... [more] |
| A0A5E4EGR8 | E-Value: 6.429e-68, PID: 50.00 | (Full=PREDICTED: serine/arginine repetitive matrix... [more] |
| A0A2J6KNK8 | E-Value: 8.782e-68, PID: 50.84 | cwf21 domain-containing protein {ECO:0000259|SMART... [more] |
| A0A6N2L081 | E-Value: 1.580e-67, PID: 48.06 | cwf21 domain-containing protein {ECO:0000259|Pfam:... [more] |
| A0A4U5PQZ5 | E-Value: 1.650e-67, PID: 47.69 | cwf21 domain-containing protein {ECO:0000259|SMART... [more] |
| A0A5N5MDE6 | E-Value: 1.868e-67, PID: 47.78 | cwf21 domain-containing protein {ECO:0000259|Pfam:... [more] |
| A0A5B7C0K1 | E-Value: 2.904e-67, PID: 68.60 | (Putative pre-mRNA-splicing factor CWC21-like {ECO... [more] |
| M5XQ36 | E-Value: 3.446e-67, PID: 51.88 | cwf21 domain-containing protein {ECO:0000259|SMART... [more] |
Pages
back to top| Name | Description |
|---|---|
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 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 | |
This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction 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 these same DCAR gene predictions. | |
For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins. Data from this analysis can be viewed in JBrowse here. |