Gene loci information

Transcript annotation

  • This transcript has been annotated as Unconventional myosin-Va.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g6714 g6714.t3 TSS g6714.t3 18267307 18267307
chr_2 g6714 g6714.t3 isoform g6714.t3 18267419 18274227
chr_2 g6714 g6714.t3 exon g6714.t3.exon1 18267419 18267445
chr_2 g6714 g6714.t3 cds g6714.t3.CDS1 18267419 18267445
chr_2 g6714 g6714.t3 exon g6714.t3.exon2 18267947 18269269
chr_2 g6714 g6714.t3 cds g6714.t3.CDS2 18267947 18269269
chr_2 g6714 g6714.t3 exon g6714.t3.exon3 18269362 18269871
chr_2 g6714 g6714.t3 cds g6714.t3.CDS3 18269362 18269871
chr_2 g6714 g6714.t3 exon g6714.t3.exon4 18270034 18270584
chr_2 g6714 g6714.t3 cds g6714.t3.CDS4 18270034 18270584
chr_2 g6714 g6714.t3 exon g6714.t3.exon5 18270786 18270977
chr_2 g6714 g6714.t3 cds g6714.t3.CDS5 18270786 18270977
chr_2 g6714 g6714.t3 exon g6714.t3.exon6 18271033 18271290
chr_2 g6714 g6714.t3 cds g6714.t3.CDS6 18271033 18271290
chr_2 g6714 g6714.t3 exon g6714.t3.exon7 18271351 18271976
chr_2 g6714 g6714.t3 cds g6714.t3.CDS7 18271351 18271976
chr_2 g6714 g6714.t3 exon g6714.t3.exon8 18272128 18273737
chr_2 g6714 g6714.t3 cds g6714.t3.CDS8 18272128 18273737
chr_2 g6714 g6714.t3 exon g6714.t3.exon9 18273794 18274027
chr_2 g6714 g6714.t3 cds g6714.t3.CDS9 18273794 18274027
chr_2 g6714 g6714.t3 exon g6714.t3.exon10 18274090 18274227
chr_2 g6714 g6714.t3 cds g6714.t3.CDS10 18274090 18274227
chr_2 g6714 g6714.t3 TTS g6714.t3 NA NA

Sequences

>g6714.t3 Gene=g6714 Length=5469
ATGACATTACAAGAGCTCTATGTGAAGGGAGCACGAATTTGGATTCCACATTTAGAGAAT
GTATGGGAAGGAGCTGTTCTTGATGAAAATTACGATCCGAAATTAAATTTCGTGAATGTT
ACTACTGACAAGGGAGTCAAACGCAGAATTGAAATCAAAAATGAAAAAGAGCTTCCGCAT
TTAAGAAATCCAGCTATTTTAATTGGTCAGAATGACTTGACGGCCCTCTCATATCTGCAT
GAGCCTGATGTGCTTTACAATTTGGAAGTGCGCTTTAAAGAACGTCAATTAATTTACACA
TATTGTGGTATAATTTTGGTTGCTATTAATCCCTATAAAGAGCTTCCTCTTTATGGCTCC
GATATTATACAAGCGTATCGCGGTCATAGTATCGGAGAGCTTGAACCACATATTTTTGCA
GTAGCAGAAGAAGCATATGCAAAATTAGAGAGAGAAAAAAGTAATATCAGTATTATTGTT
AGTGGAGAAAGTGGAGCCGGTAAAACTGTGTCGGCAAAATATGCCATGAGATATTTCGCT
GTTATCGGAGGAAGTGAATCTGAAACTCAGATTGAGCGAAAAGTTATCGCCTCAAGTCCG
ATTATGGAATCCATTGGAAATGCAAAAACTACTCGTAATGACAATAGTTCAAGATTCGGT
AAATTCACCAAATTACTTTTTACCAATAAAATTTCTATGATGTCGCTTACTGGTGCTACA
ATGCAAACGTATCTCCTTGAGAAATCACGAGTCGTTTTTCAAGCACCAAACGAAAGAAAT
TATCATATTTTCTATCAACTTTGCGCAGGTCGTGACAAATATCCAGAATTTTTATTAGCT
CATCCAGACAAATTCAAATACTTAAATCAAGGTCAATCACCTGTAATTCCAAAAATCATA
GACGAAGATGAGTTTAATGAAACATTAAAGGCGTTTTCAACTTTAGGATTCACTACAGAT
GAAGTAAACAATATTATAAGAGTGATTGCAGGAATTTTACATTTAGGAAATATCTCAATC
AATGCAGCTGATCAGGAGTCTTGCTCTATTGCTTCAAATGACTTATCACTTGGAATACTC
AGTGACATATTATCTCTTAATAAAACTGATTTACTTAAATGGTTAACAACACGCCAAATT
GAATCAATCAATGATACTGTGCTCATTCCGATGAATAAAGCAACAGCAGAAGCTGCCAGA
GATGCTCTAGCTAAACATATTTATTCAAAACTTTTTCTTTATATTGTGAAAACTATTAAT
CGCAATTTAGATATGGGTAAAAAGGATGAGAATTTTATAGGAGTCTTAGATATTTATGGG
TTTGAAACATTTGAATTCAATTCCTTTGAGCAATTTTGTATCAATTATGCAAATGAGAAA
TTACAGCAACAATTTAATCAGCATGTGTTCAAGTTAGAACAGGAGCAGTACCTGAAAGAA
GGAATTATTTGGAATATGATAGACTTTTATGATAATCAGCCCTGTATTGACTTGATTGAA
TCAAAATTAGGAATTTTAGATTTACTTGATGATGAATGTCGTGTACCCAATGGTTCAGAT
GATTCATGGATAGTGAAACTTAATGAAAAGTGTGGAAAGTACAAGCATTTTGAAAAACCG
CGATTCGGAATGACTGCATTTCTTGTTAAACATTTTTCGGACACAGTTCAATACGAGAGT
TTTGGATTCCTAGAGAAAAATCGAGATACTGTTTCGAAAGAATTGGTGAATGTTGTTCAA
CAATCTGATGTAGATTTTTGCCGTCATTTAATGCTTCTTGATGAAAAAAATGATAAAACT
AAATCTCTCCAAACTGGTACAAGTAGCTTAAAAGTTGTTGTCAGTGCATCTAAACTACAG
ACACTTCCATCAAAACAGCATAAACAAACAGTTGGCTCTCAATTTCGAGAAAGTTTAACA
CAATTAATTACAACTCTTCACTCAACTACACCGCATTATGTACGATGTATTAAACCAAAT
GATGATAAAGAAGCATTTAGCTGGGAAGCTAGTAAAATTGTACAGCAATTGCGGGCTTGT
GGTGTTTTAGAAACAGTCCGGATATCAGCAGCAGGTTTTCCATCTCGATGGTCATATGAA
GACTTTTATGAACGCTACCGTTTATTATGTAAACGAGCAGAAATTGTTGATTGGAATGTG
AAAGCTACATGCACTAATATTGTCCGAAACTGGTTACAAGATGAGGATAAATATCGTTTT
GGTCATACTCAAATATTCTTTCGTGCTGGTCAAGTAGCTTATTTGGAGCAGCTTCGAATG
GAACTTAGAAGAAAATATATTATCATTGTACAATCAACAATTAGGCGCTTTATTTATAGA
ACCAAATATTTGAGATTAAAGCGCACAGCTCTCGGTTTACAAAAGTATTCAAGAGGACTT
CTGGCACGAAGGAAAGCAAACAATTTGAGACAAAATCGTGCTGCGGTACAGATTCAACGT
TTTATGAAAGGATGGTTTGTGCGCACAAAGTATATTAATGCTAAGAAAAGCATTTTGGCA
ATTCAAAAATATGGACGAGGGTATCTTGCTAGAAAACGTTTTGAAAAAACAATGGATAAT
TACAAAGCAACTGAAATTCAGAGATTCTGTCGAGGTTTCCTGGCAAGAAGAAAATACAAT
CAAAAAATTCGTCAAATTATTATTGTGCAATGCTGTATTAGACGCTTCTTGGCAAGAAAA
AAGATTAAGATACTAAAAGCTGAAGCTCGATCAATTTCTCATTTACAAACGAAGTATAAG
GGACTCGAAAATAAAATTATTGAGCTTCAACAAAAGTATGATCAACTCAATAAAGAAAAC
GCGAACCTCAAAATACAAGTATCAGTCATTCCAGAATTAAGGAATAAAGCGGATTGCCTT
AAAGCAATTGAAAATGAACTTAAAGTAGTAAAGTCTGCTTTAAGTGATAAAGAAGATCAG
CTTATATCTGTGCAGAAATCATTAGATCGAGAACGTGATGAGAAAATGACTCTTCTTGAT
GAGAAAACAAAGGATGAAGAAAATTGGTTGATTGAAAGAAATCAATTCATAATCGAAAAA
GAAGAATTGAAGCAACAATTATCTGAAACATTAGCATTGAATAAAAATGATGAGAATGAA
AAATTAAGAGAAGCTGAAATTAATGAAATTAATCAAGCATATCACAAAGCTATAAAAAAT
AAGGAATCTTTAGAGAGTGAAAATGTACTGCTCAAACAAGAAATAAAAAGGCTTCAAATG
ATTATATCCAACTCAAATGATATCGAAAATTTACGTACTTTTGGAAATGAAGAAGACCAT
GGCTATTCATCACAAAAAAATACATTGGAAAAGACAAAACATCATGATTCATCAGTTTCA
GAAGGTGAATTTTTCTCATTACCAAATTCAAATCAGTCGAGTATATTACACAATAGTACA
ACACCATCAATTTTTGAACGTAAATTGAAAAACTTTTTTCGTTTTTCTACGAATCGTAAT
TCGGAAGACCAGACGACATCAACACCAAATAATAGCCCAATTCATAACCAGGATGCTACT
GTACTTATGTTGAGATTAAGAAAATTACTTGAAGAAGAAAAGTCGAAAGGAGATTCATTG
CGAAATGAGATTGATCGAATTAAACGTAAAAGTAATACAAGCATTTCTGAAGATTCAATT
AAACTGTCAGAATTAGAAGTTGAAAATGAAAAATTGCGCCAAGATTATCAATTGCTTAGA
AACAGCATCAAACGTGGTGTTGAACAACAAGAGCTTGAAGCTCAATATATATCACTAGTA
GAAGAACTAAAGAGACGAAGAGATGAATGTATTCAATTACGTTCAATACTATCGCAACAA
TCACAATCCATCCGTACTTTTGGAAATTTAGACTCATCAACTAGAAGTATTGACAACAGT
GAATTGATGGAGGCATTCCAAGCACAAAAGCTAGCTAATAAACAACTTGAATCTGAATTG
ACTGCATTAACAGAAGAACATAATATGAAACTTACAGAGATGATGCGCGAAATTGATGCT
TTACGTAATGAAAAATGTATGCTAGAGAGTATAATTCAAGATAAATTAGAAATGGAAAAT
GGAATAGATCCGACTATATTGCGTCAAAAAGAAAGTTATTTACGATTAGAATTGGAACGT
TGCTCAGCAGCATACGTTGATTCTCAGGAACAATTAAATATTGCGAAAAATCAACTGATT
GAATTACAAAAGTGTAGTAATATACTTTCGAATCGTTTGAAAGAGCATGGTCTAAATGAT
TCAATTCTATCAAGTAATGCAATTGGAAATAGTATGGCCGGTGTTATGAAGAAAAAAGCT
CAAAGTTATCAAGGCATTCTTAAGCACCAGAATTCAGATGAGTTGAAAATTGTACAACGT
TTAGTTCATGAATTAACACCAAGAATAGCAATCACATTACTTCCGAGTCTTCCTGCTTAT
ATTCTTTTCATGTGTATTAGATACACAGATTTGTTAAATGCAGATGATCAAGTGAAATCA
TTATTAACTAATTTTATTCTAGCAGTAAAAAAGATTTTTAAATCTCCAAGCAAACCTGAA
GCACGTATTTTATGGATAGTAAATTCTATCACATTACATAACTTACTAAAGCAATACGGA
GGAAATGAAGAATATATGCGATATAACACAGAACTTCAAAACCAACAACAACTGAAGAAT
TTTGATTTGTCTGAATATCGAGTAGTTTTACAAGAGGCAATAATATATATGTATGAATCA
TTAATAAGACAAATTCAAGAATCTATAAAACCTCATATTGTTCCTGCCATTTTACACCAT
GACGAAACTGCCCGTGGAAAGAGTCGTCGATCACAAATTTCCGAATCACCAAGTGCTGAA
AACAGAATTGAGCCACAATCTCTAATTGATCAACTAGATTATTTACATAAACAATGCATG
TTTTTTGGTCTATATGAAGGTTATATAGAGCAAATTTTCCAGCAATTGTTTTACTATATA
TGTGCAATAGCATTGAATAATCTCATGTTGAGACGTGATCTTTGTACTTGGAAAACTGGA
ATGAAATTAAAATTCAACTTGTCTTGTCTTGAAACATGGGTTAAAAAGCAAAAAATGTCA
GATTCTATTATATCTCCTTCTTCGCCATTGACTGAAGCTGCTCTTTTATTGCAATCACGA
AAAACAGATGCAGATGTGGATAGTATTTGTGAAATTTGTCCATCATTGACTAGTGCACAA
ATTTTGAAACTTGTAAAATCTTACACACCAGACGACTGTGAAGACACAATTTCTCCAACA
TTTATCGAAAAATTAAGTGTGAAATTGAAGGAAATTAAAATAAACGATACGTCACTAAAC
GAAACATTTACTATGGACGAAAATCATATAAACCCGTTTAGAGTAATATTCAAATATAAT
GACATGAAATTAGAGGACATCGAAATTCCTGAAGTATTGAAGATTGATAATTTAGTTACT
AAAATTTAA

>g6714.t3 Gene=g6714 Length=1822
MTLQELYVKGARIWIPHLENVWEGAVLDENYDPKLNFVNVTTDKGVKRRIEIKNEKELPH
LRNPAILIGQNDLTALSYLHEPDVLYNLEVRFKERQLIYTYCGIILVAINPYKELPLYGS
DIIQAYRGHSIGELEPHIFAVAEEAYAKLEREKSNISIIVSGESGAGKTVSAKYAMRYFA
VIGGSESETQIERKVIASSPIMESIGNAKTTRNDNSSRFGKFTKLLFTNKISMMSLTGAT
MQTYLLEKSRVVFQAPNERNYHIFYQLCAGRDKYPEFLLAHPDKFKYLNQGQSPVIPKII
DEDEFNETLKAFSTLGFTTDEVNNIIRVIAGILHLGNISINAADQESCSIASNDLSLGIL
SDILSLNKTDLLKWLTTRQIESINDTVLIPMNKATAEAARDALAKHIYSKLFLYIVKTIN
RNLDMGKKDENFIGVLDIYGFETFEFNSFEQFCINYANEKLQQQFNQHVFKLEQEQYLKE
GIIWNMIDFYDNQPCIDLIESKLGILDLLDDECRVPNGSDDSWIVKLNEKCGKYKHFEKP
RFGMTAFLVKHFSDTVQYESFGFLEKNRDTVSKELVNVVQQSDVDFCRHLMLLDEKNDKT
KSLQTGTSSLKVVVSASKLQTLPSKQHKQTVGSQFRESLTQLITTLHSTTPHYVRCIKPN
DDKEAFSWEASKIVQQLRACGVLETVRISAAGFPSRWSYEDFYERYRLLCKRAEIVDWNV
KATCTNIVRNWLQDEDKYRFGHTQIFFRAGQVAYLEQLRMELRRKYIIIVQSTIRRFIYR
TKYLRLKRTALGLQKYSRGLLARRKANNLRQNRAAVQIQRFMKGWFVRTKYINAKKSILA
IQKYGRGYLARKRFEKTMDNYKATEIQRFCRGFLARRKYNQKIRQIIIVQCCIRRFLARK
KIKILKAEARSISHLQTKYKGLENKIIELQQKYDQLNKENANLKIQVSVIPELRNKADCL
KAIENELKVVKSALSDKEDQLISVQKSLDRERDEKMTLLDEKTKDEENWLIERNQFIIEK
EELKQQLSETLALNKNDENEKLREAEINEINQAYHKAIKNKESLESENVLLKQEIKRLQM
IISNSNDIENLRTFGNEEDHGYSSQKNTLEKTKHHDSSVSEGEFFSLPNSNQSSILHNST
TPSIFERKLKNFFRFSTNRNSEDQTTSTPNNSPIHNQDATVLMLRLRKLLEEEKSKGDSL
RNEIDRIKRKSNTSISEDSIKLSELEVENEKLRQDYQLLRNSIKRGVEQQELEAQYISLV
EELKRRRDECIQLRSILSQQSQSIRTFGNLDSSTRSIDNSELMEAFQAQKLANKQLESEL
TALTEEHNMKLTEMMREIDALRNEKCMLESIIQDKLEMENGIDPTILRQKESYLRLELER
CSAAYVDSQEQLNIAKNQLIELQKCSNILSNRLKEHGLNDSILSSNAIGNSMAGVMKKKA
QSYQGILKHQNSDELKIVQRLVHELTPRIAITLLPSLPAYILFMCIRYTDLLNADDQVKS
LLTNFILAVKKIFKSPSKPEARILWIVNSITLHNLLKQYGGNEEYMRYNTELQNQQQLKN
FDLSEYRVVLQEAIIYMYESLIRQIQESIKPHIVPAILHHDETARGKSRRSQISESPSAE
NRIEPQSLIDQLDYLHKQCMFFGLYEGYIEQIFQQLFYYICAIALNNLMLRRDLCTWKTG
MKLKFNLSCLETWVKKQKMSDSIISPSSPLTEAALLLQSRKTDADVDSICEICPSLTSAQ
ILKLVKSYTPDDCEDTISPTFIEKLSVKLKEIKINDTSLNETFTMDENHINPFRVIFKYN
DMKLEDIEIPEVLKIDNLVTKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
31 g6714.t3 CDD cd01380 MYSc_Myo5 82 748 0.0
32 g6714.t3 CDD cd15470 Myo5_CBD 1453 1814 4.02001E-123
25 g6714.t3 Coils Coil Coil 905 946 -
24 g6714.t3 Coils Coil Coil 960 1008 -
30 g6714.t3 Coils Coil Coil 1020 1081 -
26 g6714.t3 Coils Coil Coil 1183 1210 -
29 g6714.t3 Coils Coil Coil 1215 1242 -
28 g6714.t3 Coils Coil Coil 1249 1269 -
27 g6714.t3 Coils Coil Coil 1299 1344 -
22 g6714.t3 Gene3D G3DSA:2.30.30.360 Myosin S1 fragment 16 62 6.0E-229
18 g6714.t3 Gene3D G3DSA:3.40.850.10 Kinesin 63 689 6.0E-229
17 g6714.t3 Gene3D G3DSA:1.20.120.720 - 317 621 6.0E-229
23 g6714.t3 Gene3D G3DSA:1.20.58.530 - 441 648 6.0E-229
16 g6714.t3 Gene3D G3DSA:3.30.70.3240 - 692 761 4.6E-21
19 g6714.t3 Gene3D G3DSA:1.20.5.190 - 762 813 2.2E-12
20 g6714.t3 Gene3D G3DSA:1.20.5.190 - 814 862 2.6E-12
21 g6714.t3 Gene3D G3DSA:1.20.5.190 - 863 911 7.0E-7
6 g6714.t3 PANTHER PTHR13140:SF273 UNCONVENTIONAL MYOSIN-VA 9 1814 0.0
7 g6714.t3 PANTHER PTHR13140 MYOSIN 9 1814 0.0
11 g6714.t3 PRINTS PR00193 Myosin heavy chain signature 99 118 4.7E-62
9 g6714.t3 PRINTS PR00193 Myosin heavy chain signature 155 180 4.7E-62
10 g6714.t3 PRINTS PR00193 Myosin heavy chain signature 200 227 4.7E-62
8 g6714.t3 PRINTS PR00193 Myosin heavy chain signature 432 460 4.7E-62
12 g6714.t3 PRINTS PR00193 Myosin heavy chain signature 485 513 4.7E-62
2 g6714.t3 Pfam PF00063 Myosin head (motor domain) 71 748 4.1E-251
5 g6714.t3 Pfam PF00612 IQ calmodulin-binding motif 813 831 0.055
4 g6714.t3 Pfam PF00612 IQ calmodulin-binding motif 836 854 5.9E-4
3 g6714.t3 Pfam PF00612 IQ calmodulin-binding motif 863 879 3.4E-4
1 g6714.t3 Pfam PF01843 DIL domain 1651 1752 8.1E-28
41 g6714.t3 ProSiteProfiles PS51456 Myosin motor domain profile. 68 760 243.667
44 g6714.t3 ProSiteProfiles PS50096 IQ motif profile. 786 815 8.187
43 g6714.t3 ProSiteProfiles PS50096 IQ motif profile. 811 840 7.931
46 g6714.t3 ProSiteProfiles PS50096 IQ motif profile. 834 863 9.871
45 g6714.t3 ProSiteProfiles PS50096 IQ motif profile. 859 886 9.231
42 g6714.t3 ProSiteProfiles PS50096 IQ motif profile. 882 911 6.559
47 g6714.t3 ProSiteProfiles PS51126 Dilute domain profile. 1503 1771 42.084
40 g6714.t3 SMART SM00242 MYSc_2a 62 761 0.0
34 g6714.t3 SMART SM00015 iq_5 762 784 27.0
33 g6714.t3 SMART SM00015 iq_5 785 807 1.7
35 g6714.t3 SMART SM00015 iq_5 810 832 0.36
37 g6714.t3 SMART SM00015 iq_5 833 855 0.006
36 g6714.t3 SMART SM00015 iq_5 858 880 1.9
38 g6714.t3 SMART SM00015 iq_5 881 903 3.5
39 g6714.t3 SMART SM01132 DIL_2 1651 1754 7.7E-41
13 g6714.t3 SUPERFAMILY SSF50084 Myosin S1 fragment, N-terminal domain 6 61 1.26E-8
14 g6714.t3 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 51 810 4.57E-258
15 g6714.t3 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 812 912 2.12E-10

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0051015 actin filament binding MF
GO:0005524 ATP binding MF
GO:0005515 protein binding MF
GO:0016459 myosin complex CC
GO:0003774 cytoskeletal motor activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values