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.t2 TSS g6714.t2 18267307 18267307
chr_2 g6714 g6714.t2 isoform g6714.t2 18267419 18274227
chr_2 g6714 g6714.t2 exon g6714.t2.exon1 18267419 18267445
chr_2 g6714 g6714.t2 cds g6714.t2.CDS1 18267419 18267445
chr_2 g6714 g6714.t2 exon g6714.t2.exon2 18267947 18269269
chr_2 g6714 g6714.t2 cds g6714.t2.CDS2 18267947 18269269
chr_2 g6714 g6714.t2 exon g6714.t2.exon3 18269362 18269871
chr_2 g6714 g6714.t2 cds g6714.t2.CDS3 18269362 18269871
chr_2 g6714 g6714.t2 exon g6714.t2.exon4 18269941 18269967
chr_2 g6714 g6714.t2 cds g6714.t2.CDS4 18269941 18269967
chr_2 g6714 g6714.t2 exon g6714.t2.exon5 18270034 18270584
chr_2 g6714 g6714.t2 cds g6714.t2.CDS5 18270034 18270584
chr_2 g6714 g6714.t2 exon g6714.t2.exon6 18270786 18270977
chr_2 g6714 g6714.t2 cds g6714.t2.CDS6 18270786 18270977
chr_2 g6714 g6714.t2 exon g6714.t2.exon7 18271033 18271290
chr_2 g6714 g6714.t2 cds g6714.t2.CDS7 18271033 18271290
chr_2 g6714 g6714.t2 exon g6714.t2.exon8 18271351 18271976
chr_2 g6714 g6714.t2 cds g6714.t2.CDS8 18271351 18271976
chr_2 g6714 g6714.t2 exon g6714.t2.exon9 18272128 18273737
chr_2 g6714 g6714.t2 cds g6714.t2.CDS9 18272128 18273737
chr_2 g6714 g6714.t2 exon g6714.t2.exon10 18273794 18274027
chr_2 g6714 g6714.t2 cds g6714.t2.CDS10 18273794 18274027
chr_2 g6714 g6714.t2 exon g6714.t2.exon11 18274090 18274227
chr_2 g6714 g6714.t2 cds g6714.t2.CDS11 18274090 18274227
chr_2 g6714 g6714.t2 TTS g6714.t2 NA NA

Sequences

>g6714.t2 Gene=g6714 Length=5496
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
TCTGTAAAATCGGATGTCCGTTCAAAAACACTTCCATCAAAACAGCATAAACAAACAGTT
GGCTCTCAATTTCGAGAAAGTTTAACACAATTAATTACAACTCTTCACTCAACTACACCG
CATTATGTACGATGTATTAAACCAAATGATGATAAAGAAGCATTTAGCTGGGAAGCTAGT
AAAATTGTACAGCAATTGCGGGCTTGTGGTGTTTTAGAAACAGTCCGGATATCAGCAGCA
GGTTTTCCATCTCGATGGTCATATGAAGACTTTTATGAACGCTACCGTTTATTATGTAAA
CGAGCAGAAATTGTTGATTGGAATGTGAAAGCTACATGCACTAATATTGTCCGAAACTGG
TTACAAGATGAGGATAAATATCGTTTTGGTCATACTCAAATATTCTTTCGTGCTGGTCAA
GTAGCTTATTTGGAGCAGCTTCGAATGGAACTTAGAAGAAAATATATTATCATTGTACAA
TCAACAATTAGGCGCTTTATTTATAGAACCAAATATTTGAGATTAAAGCGCACAGCTCTC
GGTTTACAAAAGTATTCAAGAGGACTTCTGGCACGAAGGAAAGCAAACAATTTGAGACAA
AATCGTGCTGCGGTACAGATTCAACGTTTTATGAAAGGATGGTTTGTGCGCACAAAGTAT
ATTAATGCTAAGAAAAGCATTTTGGCAATTCAAAAATATGGACGAGGGTATCTTGCTAGA
AAACGTTTTGAAAAAACAATGGATAATTACAAAGCAACTGAAATTCAGAGATTCTGTCGA
GGTTTCCTGGCAAGAAGAAAATACAATCAAAAAATTCGTCAAATTATTATTGTGCAATGC
TGTATTAGACGCTTCTTGGCAAGAAAAAAGATTAAGATACTAAAAGCTGAAGCTCGATCA
ATTTCTCATTTACAAACGAAGTATAAGGGACTCGAAAATAAAATTATTGAGCTTCAACAA
AAGTATGATCAACTCAATAAAGAAAACGCGAACCTCAAAATACAAGTATCAGTCATTCCA
GAATTAAGGAATAAAGCGGATTGCCTTAAAGCAATTGAAAATGAACTTAAAGTAGTAAAG
TCTGCTTTAAGTGATAAAGAAGATCAGCTTATATCTGTGCAGAAATCATTAGATCGAGAA
CGTGATGAGAAAATGACTCTTCTTGATGAGAAAACAAAGGATGAAGAAAATTGGTTGATT
GAAAGAAATCAATTCATAATCGAAAAAGAAGAATTGAAGCAACAATTATCTGAAACATTA
GCATTGAATAAAAATGATGAGAATGAAAAATTAAGAGAAGCTGAAATTAATGAAATTAAT
CAAGCATATCACAAAGCTATAAAAAATAAGGAATCTTTAGAGAGTGAAAATGTACTGCTC
AAACAAGAAATAAAAAGGCTTCAAATGATTATATCCAACTCAAATGATATCGAAAATTTA
CGTACTTTTGGAAATGAAGAAGACCATGGCTATTCATCACAAAAAAATACATTGGAAAAG
ACAAAACATCATGATTCATCAGTTTCAGAAGGTGAATTTTTCTCATTACCAAATTCAAAT
CAGTCGAGTATATTACACAATAGTACAACACCATCAATTTTTGAACGTAAATTGAAAAAC
TTTTTTCGTTTTTCTACGAATCGTAATTCGGAAGACCAGACGACATCAACACCAAATAAT
AGCCCAATTCATAACCAGGATGCTACTGTACTTATGTTGAGATTAAGAAAATTACTTGAA
GAAGAAAAGTCGAAAGGAGATTCATTGCGAAATGAGATTGATCGAATTAAACGTAAAAGT
AATACAAGCATTTCTGAAGATTCAATTAAACTGTCAGAATTAGAAGTTGAAAATGAAAAA
TTGCGCCAAGATTATCAATTGCTTAGAAACAGCATCAAACGTGGTGTTGAACAACAAGAG
CTTGAAGCTCAATATATATCACTAGTAGAAGAACTAAAGAGACGAAGAGATGAATGTATT
CAATTACGTTCAATACTATCGCAACAATCACAATCCATCCGTACTTTTGGAAATTTAGAC
TCATCAACTAGAAGTATTGACAACAGTGAATTGATGGAGGCATTCCAAGCACAAAAGCTA
GCTAATAAACAACTTGAATCTGAATTGACTGCATTAACAGAAGAACATAATATGAAACTT
ACAGAGATGATGCGCGAAATTGATGCTTTACGTAATGAAAAATGTATGCTAGAGAGTATA
ATTCAAGATAAATTAGAAATGGAAAATGGAATAGATCCGACTATATTGCGTCAAAAAGAA
AGTTATTTACGATTAGAATTGGAACGTTGCTCAGCAGCATACGTTGATTCTCAGGAACAA
TTAAATATTGCGAAAAATCAACTGATTGAATTACAAAAGTGTAGTAATATACTTTCGAAT
CGTTTGAAAGAGCATGGTCTAAATGATTCAATTCTATCAAGTAATGCAATTGGAAATAGT
ATGGCCGGTGTTATGAAGAAAAAAGCTCAAAGTTATCAAGGCATTCTTAAGCACCAGAAT
TCAGATGAGTTGAAAATTGTACAACGTTTAGTTCATGAATTAACACCAAGAATAGCAATC
ACATTACTTCCGAGTCTTCCTGCTTATATTCTTTTCATGTGTATTAGATACACAGATTTG
TTAAATGCAGATGATCAAGTGAAATCATTATTAACTAATTTTATTCTAGCAGTAAAAAAG
ATTTTTAAATCTCCAAGCAAACCTGAAGCACGTATTTTATGGATAGTAAATTCTATCACA
TTACATAACTTACTAAAGCAATACGGAGGAAATGAAGAATATATGCGATATAACACAGAA
CTTCAAAACCAACAACAACTGAAGAATTTTGATTTGTCTGAATATCGAGTAGTTTTACAA
GAGGCAATAATATATATGTATGAATCATTAATAAGACAAATTCAAGAATCTATAAAACCT
CATATTGTTCCTGCCATTTTACACCATGACGAAACTGCCCGTGGAAAGAGTCGTCGATCA
CAAATTTCCGAATCACCAAGTGCTGAAAACAGAATTGAGCCACAATCTCTAATTGATCAA
CTAGATTATTTACATAAACAATGCATGTTTTTTGGTCTATATGAAGGTTATATAGAGCAA
ATTTTCCAGCAATTGTTTTACTATATATGTGCAATAGCATTGAATAATCTCATGTTGAGA
CGTGATCTTTGTACTTGGAAAACTGGAATGAAATTAAAATTCAACTTGTCTTGTCTTGAA
ACATGGGTTAAAAAGCAAAAAATGTCAGATTCTATTATATCTCCTTCTTCGCCATTGACT
GAAGCTGCTCTTTTATTGCAATCACGAAAAACAGATGCAGATGTGGATAGTATTTGTGAA
ATTTGTCCATCATTGACTAGTGCACAAATTTTGAAACTTGTAAAATCTTACACACCAGAC
GACTGTGAAGACACAATTTCTCCAACATTTATCGAAAAATTAAGTGTGAAATTGAAGGAA
ATTAAAATAAACGATACGTCACTAAACGAAACATTTACTATGGACGAAAATCATATAAAC
CCGTTTAGAGTAATATTCAAATATAATGACATGAAATTAGAGGACATCGAAATTCCTGAA
GTATTGAAGATTGATAATTTAGTTACTAAAATTTAA

>g6714.t2 Gene=g6714 Length=1831
MTLQELYVKGARIWIPHLENVWEGAVLDENYDPKLNFVNVTTDKGVKRRIEIKNEKELPH
LRNPAILIGQNDLTALSYLHEPDVLYNLEVRFKERQLIYTYCGIILVAINPYKELPLYGS
DIIQAYRGHSIGELEPHIFAVAEEAYAKLEREKSNISIIVSGESGAGKTVSAKYAMRYFA
VIGGSESETQIERKVIASSPIMESIGNAKTTRNDNSSRFGKFTKLLFTNKISMMSLTGAT
MQTYLLEKSRVVFQAPNERNYHIFYQLCAGRDKYPEFLLAHPDKFKYLNQGQSPVIPKII
DEDEFNETLKAFSTLGFTTDEVNNIIRVIAGILHLGNISINAADQESCSIASNDLSLGIL
SDILSLNKTDLLKWLTTRQIESINDTVLIPMNKATAEAARDALAKHIYSKLFLYIVKTIN
RNLDMGKKDENFIGVLDIYGFETFEFNSFEQFCINYANEKLQQQFNQHVFKLEQEQYLKE
GIIWNMIDFYDNQPCIDLIESKLGILDLLDDECRVPNGSDDSWIVKLNEKCGKYKHFEKP
RFGMTAFLVKHFSDTVQYESFGFLEKNRDTVSKELVNVVQQSDVDFCRHLMLLDEKNDKT
KSLQTGTSSLKVVVSASKLQSVKSDVRSKTLPSKQHKQTVGSQFRESLTQLITTLHSTTP
HYVRCIKPNDDKEAFSWEASKIVQQLRACGVLETVRISAAGFPSRWSYEDFYERYRLLCK
RAEIVDWNVKATCTNIVRNWLQDEDKYRFGHTQIFFRAGQVAYLEQLRMELRRKYIIIVQ
STIRRFIYRTKYLRLKRTALGLQKYSRGLLARRKANNLRQNRAAVQIQRFMKGWFVRTKY
INAKKSILAIQKYGRGYLARKRFEKTMDNYKATEIQRFCRGFLARRKYNQKIRQIIIVQC
CIRRFLARKKIKILKAEARSISHLQTKYKGLENKIIELQQKYDQLNKENANLKIQVSVIP
ELRNKADCLKAIENELKVVKSALSDKEDQLISVQKSLDRERDEKMTLLDEKTKDEENWLI
ERNQFIIEKEELKQQLSETLALNKNDENEKLREAEINEINQAYHKAIKNKESLESENVLL
KQEIKRLQMIISNSNDIENLRTFGNEEDHGYSSQKNTLEKTKHHDSSVSEGEFFSLPNSN
QSSILHNSTTPSIFERKLKNFFRFSTNRNSEDQTTSTPNNSPIHNQDATVLMLRLRKLLE
EEKSKGDSLRNEIDRIKRKSNTSISEDSIKLSELEVENEKLRQDYQLLRNSIKRGVEQQE
LEAQYISLVEELKRRRDECIQLRSILSQQSQSIRTFGNLDSSTRSIDNSELMEAFQAQKL
ANKQLESELTALTEEHNMKLTEMMREIDALRNEKCMLESIIQDKLEMENGIDPTILRQKE
SYLRLELERCSAAYVDSQEQLNIAKNQLIELQKCSNILSNRLKEHGLNDSILSSNAIGNS
MAGVMKKKAQSYQGILKHQNSDELKIVQRLVHELTPRIAITLLPSLPAYILFMCIRYTDL
LNADDQVKSLLTNFILAVKKIFKSPSKPEARILWIVNSITLHNLLKQYGGNEEYMRYNTE
LQNQQQLKNFDLSEYRVVLQEAIIYMYESLIRQIQESIKPHIVPAILHHDETARGKSRRS
QISESPSAENRIEPQSLIDQLDYLHKQCMFFGLYEGYIEQIFQQLFYYICAIALNNLMLR
RDLCTWKTGMKLKFNLSCLETWVKKQKMSDSIISPSSPLTEAALLLQSRKTDADVDSICE
ICPSLTSAQILKLVKSYTPDDCEDTISPTFIEKLSVKLKEIKINDTSLNETFTMDENHIN
PFRVIFKYNDMKLEDIEIPEVLKIDNLVTKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
31 g6714.t2 CDD cd01380 MYSc_Myo5 82 757 0.0
32 g6714.t2 CDD cd15470 Myo5_CBD 1462 1823 3.51272E-123
29 g6714.t2 Coils Coil Coil 914 955 -
26 g6714.t2 Coils Coil Coil 969 1017 -
25 g6714.t2 Coils Coil Coil 1029 1090 -
28 g6714.t2 Coils Coil Coil 1192 1219 -
30 g6714.t2 Coils Coil Coil 1224 1251 -
24 g6714.t2 Coils Coil Coil 1258 1278 -
27 g6714.t2 Coils Coil Coil 1308 1353 -
22 g6714.t2 Gene3D G3DSA:2.30.30.360 Myosin S1 fragment 16 62 4.4E-228
18 g6714.t2 Gene3D G3DSA:3.40.850.10 Kinesin 63 698 4.4E-228
17 g6714.t2 Gene3D G3DSA:1.20.120.720 - 317 630 4.4E-228
23 g6714.t2 Gene3D G3DSA:1.20.58.530 - 441 657 4.4E-228
16 g6714.t2 Gene3D G3DSA:3.30.70.3240 - 701 770 4.6E-21
19 g6714.t2 Gene3D G3DSA:1.20.5.190 - 771 822 2.2E-12
20 g6714.t2 Gene3D G3DSA:1.20.5.190 - 823 871 2.6E-12
21 g6714.t2 Gene3D G3DSA:1.20.5.190 - 872 920 7.0E-7
6 g6714.t2 PANTHER PTHR13140:SF273 UNCONVENTIONAL MYOSIN-VA 9 1823 0.0
7 g6714.t2 PANTHER PTHR13140 MYOSIN 9 1823 0.0
11 g6714.t2 PRINTS PR00193 Myosin heavy chain signature 99 118 4.8E-62
9 g6714.t2 PRINTS PR00193 Myosin heavy chain signature 155 180 4.8E-62
10 g6714.t2 PRINTS PR00193 Myosin heavy chain signature 200 227 4.8E-62
8 g6714.t2 PRINTS PR00193 Myosin heavy chain signature 432 460 4.8E-62
12 g6714.t2 PRINTS PR00193 Myosin heavy chain signature 485 513 4.8E-62
2 g6714.t2 Pfam PF00063 Myosin head (motor domain) 71 757 8.3E-251
3 g6714.t2 Pfam PF00612 IQ calmodulin-binding motif 822 840 0.055
4 g6714.t2 Pfam PF00612 IQ calmodulin-binding motif 845 863 6.0E-4
5 g6714.t2 Pfam PF00612 IQ calmodulin-binding motif 872 888 3.4E-4
1 g6714.t2 Pfam PF01843 DIL domain 1660 1761 8.2E-28
41 g6714.t2 ProSiteProfiles PS51456 Myosin motor domain profile. 68 769 243.306
42 g6714.t2 ProSiteProfiles PS50096 IQ motif profile. 795 824 8.187
45 g6714.t2 ProSiteProfiles PS50096 IQ motif profile. 820 849 7.931
46 g6714.t2 ProSiteProfiles PS50096 IQ motif profile. 843 872 9.871
44 g6714.t2 ProSiteProfiles PS50096 IQ motif profile. 868 895 9.231
43 g6714.t2 ProSiteProfiles PS50096 IQ motif profile. 891 920 6.559
47 g6714.t2 ProSiteProfiles PS51126 Dilute domain profile. 1512 1780 42.084
40 g6714.t2 SMART SM00242 MYSc_2a 62 770 0.0
36 g6714.t2 SMART SM00015 iq_5 771 793 27.0
38 g6714.t2 SMART SM00015 iq_5 794 816 1.7
35 g6714.t2 SMART SM00015 iq_5 819 841 0.36
33 g6714.t2 SMART SM00015 iq_5 842 864 0.006
37 g6714.t2 SMART SM00015 iq_5 867 889 1.9
34 g6714.t2 SMART SM00015 iq_5 890 912 3.5
39 g6714.t2 SMART SM01132 DIL_2 1660 1763 7.7E-41
13 g6714.t2 SUPERFAMILY SSF50084 Myosin S1 fragment, N-terminal domain 6 61 1.26E-8
14 g6714.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 51 819 1.07E-257
15 g6714.t2 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 821 921 1.77E-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