Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytohesin-1.

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 g6548 g6548.t4 TSS g6548.t4 17598315 17598315
chr_2 g6548 g6548.t4 isoform g6548.t4 17598969 17606592
chr_2 g6548 g6548.t4 exon g6548.t4.exon1 17598969 17600000
chr_2 g6548 g6548.t4 cds g6548.t4.CDS1 17598969 17600000
chr_2 g6548 g6548.t4 exon g6548.t4.exon2 17602005 17602131
chr_2 g6548 g6548.t4 cds g6548.t4.CDS2 17602005 17602131
chr_2 g6548 g6548.t4 exon g6548.t4.exon3 17602463 17602561
chr_2 g6548 g6548.t4 cds g6548.t4.CDS3 17602463 17602561
chr_2 g6548 g6548.t4 exon g6548.t4.exon4 17602632 17602731
chr_2 g6548 g6548.t4 cds g6548.t4.CDS4 17602632 17602731
chr_2 g6548 g6548.t4 exon g6548.t4.exon5 17603803 17604023
chr_2 g6548 g6548.t4 cds g6548.t4.CDS5 17603803 17604023
chr_2 g6548 g6548.t4 exon g6548.t4.exon6 17604095 17604272
chr_2 g6548 g6548.t4 cds g6548.t4.CDS6 17604095 17604272
chr_2 g6548 g6548.t4 exon g6548.t4.exon7 17604343 17604443
chr_2 g6548 g6548.t4 cds g6548.t4.CDS7 17604343 17604443
chr_2 g6548 g6548.t4 exon g6548.t4.exon8 17604545 17604623
chr_2 g6548 g6548.t4 cds g6548.t4.CDS8 17604545 17604591
chr_2 g6548 g6548.t4 exon g6548.t4.exon9 17604697 17606592
chr_2 g6548 g6548.t4 TTS g6548.t4 17607339 17607339

Sequences

>g6548.t4 Gene=g6548 Length=3833
ATGTTTGGAAGCGATAAGAAATCGAATGGTGGTAGTGGTGGCGTAACAAATTGGTTTTTC
TCACTTCGTCGACAACCCAAAAAACAGAAATCACTTGATAGTAGTAAGCTCCTACAGAAG
AGCTGCGTAGATTTATCGAGCGCTGGCGTCAATGGCGGTTCTTCCGAACAAGACTTACTA
TTCCGCACAAAGCCTTCCAAACTGAAACTAAATAACAATAGTAGCAATAATAATAATAAT
AATAATGACGACTTATCGTCAAATAGCAATTCATGTACAAATTGTTGTTGTAAATTCTCA
TCAAAAACCTCCTCATCACCGTCATTTGGTGTATCACCAATCGATGACATTGAACAGTGT
GATCAAATGCGTAGAGTGTTAATTACAAGCGAGGAAAACTATTGTGCAACAGATTTTCAT
GATTACGACGATGTAGATATCGAAGAAGAGAATGATGATATGAAAATACCACCAGCCTCA
CAACAACAGCCACAGCCAAAGCAAAAAACAAGTAATTTTAATAGTAACATTTTATTGTAC
AACAAAAAAGAAGAATTTAGCAGAACGACGCGAACGGTGACAACGAGAGTCGTTACAAAA
GCAACAATTAACGGTAATGACACAATGACCCTTCCAACACAATCGCTAACATCATCATCA
TCAACGAGCTGTAGTAATACCAATCGAAATCTAAACAGCAACATTCACCATCGTATAGGC
TTAGTATTTAATGAAAATGGGCAATTAATCAATAGGAGACAATTATTAAATGCAAAGAAC
CGTGATGGTCTAATATTTGATGAATGTGGAAGGCTTTTGTATACGGACAATGATGAAACT
TCATCATCACTCACTCCCATTTCAATATTAGATGATAGTACAATTGAGTTTATAGATAGT
TCAACACAAAACAGTGATATACAGAATCGAGCAAATATGCAAAATAAGTGTAATAATTGC
AATGGTAGCAAATTGACGATAAGTAGCAGTATATTATCAAGTTGTAAATCAGATTGGGAA
TTTTCAAAACAGCAAATTAAGGATGAGCTTAGTGAAGTAGTACAAGAGATGGAATCACAT
GAGTCCGAAAATAAGCATTCCAGTAAGGAAAAGCAAATGTCGATAGGACGGAAAAAGTTC
AATATGGATCCGAAAAAAGGTATCGAATATCTTTACGAGAACCATCTTCTCAAACATGAT
CCACAAGATGTGGCGCAATTTTTGTATAAAGGAGAAGGATTAAATAAAACAGCAATCGGT
GACTATCTAGGCGAGAAAAATCCATTCAATGAGAAAGTTTTGAAAGCTTTTGTTGAACTT
CATGACTTTACAAATCTTATTTTAGTGCAAGCTTTAAGGCAATTTTTATGGAGCTTTCGA
CTGCCGGGTGAGGCACAGAAAATTGATAGAATGATGGAGTGCTTTGCACAACGCTACTGT
CAATTAAATCCTGACATCTTTACTAACGCCGACACATGTTATGTTTTGAGTTTCGCCATT
ATTATGTTGAACACTTCTCTTCATAATCCATCTGTTAAAGATAAACCAACTGTCGAGCAA
TTTATTTCAATGAATCGAGGTGTGAATAACGGAGATGATTTACCACGAGAGCTTTTAGAA
TCACTTTACGAATCAATAAGAACCGAGCCATTTAAAATTCCACAAGATGATGGCAATGAT
TTAATGCATACATTCTTCAATCCCGATAAAGAAGGTTGGTTATGGAAACAAGGAGGGCGC
TATAAGTCGTGGAAAAGACGATGGTTTATCCTTAACGATAATTGTCTTTATTACTTTGAA
TTTACAACTGATAAAGAACCAAGAGGCATTATACCGCTAGAAAACATTATGGTAAATATA
AACCACATTGCTTTGAATTGTATGCTTCGGGTGGTGCAGAAATAATCAAGGCCTGTAAAA
CGGATTCAGAGGGCAAGGTTGTTGAGGGTAAACATACAGTTTATCGAATGTCTGCTGCTA
CTGAGGAGGAAAAGAATGAATGGATAAGACTTTTGAAACATTCAATTGCCCATAATCCGT
TTTATGACATTTTGGTACAAAGGAAGAAGAAGGCGCTTGTTAAGAGTTAGTAGATTGTAA
GGAGTAAATAAACGCACTCGCATCAAAGCTTGTTCCTTCATTTAAAAGGTCAACGGCAGA
AACGACAATTCAGTCTCATTTCTAAAACATGTATAATCATAATTTTCTTTTTAATCATCA
CATTAAAACAACCATCATCAACGATAATCTAAATCTTATATTATACGCTGCAATTCAATT
AGTAACACACATACGCAAAACCAAGGGGAAAAAATTCATTCATCATAAAAAATGAATGTA
TTCTTCCGATTATTTTATTGCTTTACCTCATTACACAATTTATTACTAGCGGTGTGTGTT
TTGAGTCCCTGTGTGTGTATATGATTGTGCTTTTTTGCAGTTAAAAGGGGTCAACATGAA
AGAGGAAAAATGGCATCCATAAAAATGATAATCATGAGACACGTCAATAATGATAATTCG
TAAAGTGCTTTTAATGTTCTCATTGTTTCAAATAAATTAATTTATTATGACAATTTTAAT
TTCAATAAATTTTCTGCAATTTGCTTCCATATTTTTCTGAAAAAAATGAGAAAAGCCTGA
GTAGAAAAGGTCGATCACGACAAATAACAATGATGATGATATGTATTGATGCCAAAATTT
CTTTGCAATTATTTCATTTTTTTTGTAAATTGATAAATTTTAATAACTTCCAGGAATGCA
TAACTCAAATGAAAATTTTCACTTGAGATTTGATGCTTCATTTTCATAAAATATAAATTT
AAATCATACAATACAAAAATTTTACATAAAATTTTATACCTAAGTGGAAACGATTTGTAC
CAAGTAAAGAGAGTTGCATGCAAACAACAGAAAGTTTTATATATTTCGAGCAGAAAAAAG
AAGAAATCAATCTTATATCCCTGAAAACTTTTCTTCTCTCATTCATATCACTGAAACTCA
TAAAGATAAAAAAAAATTTCTACATACATAAATCACATACATCAAAATTTACCTATATAT
GTATAATAAAATAATATCTTTCTGATGAAAGTGATTTTAATTTACTTTATTACTATCTAC
CTATGTGATGAAAGTGAGATGGATTCTCTGAATTGAGCTATTTAGAGTTAATTTTAATTT
CAATTCAGTGATACGTCTGAGTTATTGTTAAAACAATAATTTTATATAATGTCATTTGAT
TTCATTATCCCACTGAAGAGACCTATTTTAAAGTTTCAATTAATTAAAGAACTGCATCAT
TATAGAATCTCTAAAATTTTATTTTTTAATGAAACAACTGTGAAAAGTATAATGATGCAT
TTTAGTGACGATATAAAAACATATTAATTTTAGTATCTTCAGATATATATGTACACGAGC
TTATATTTTTTTGTCTCTTTTTTAAAGAATACAAACAAATTGTTTAAAACGTAATGAGAA
AGAGATGAAAATGTTTTAGAAATTAGTTTCAAATTTATTTAATTTTAAAGTTAAACACAG
ACATATTTAATTGAATTTCCTATTGAAAAATTTATTTGATTTTAGTCTAAAATAGGTATA
AGATGTAACAAGATTTCTAATTTTGTGCAAAATGATGAAATAAAAAAGATAAATCAATGA
TTTTAAATAAAGTTTTCTTTTATTGTAAAATTCATTTCAGACATAAGCTTTTTCTTTATA
CCTAATACAGCGTATTCTTTTCTTTTTTGTTGCACAAAATGTGTGTTGTTGTCACATATG
ACAAAATTTTTTAATTTTTATTAACGGCTGTTTTATTTTTGAATTTTTATAGA

>g6548.t4 Gene=g6548 Length=634
MFGSDKKSNGGSGGVTNWFFSLRRQPKKQKSLDSSKLLQKSCVDLSSAGVNGGSSEQDLL
FRTKPSKLKLNNNSSNNNNNNNDDLSSNSNSCTNCCCKFSSKTSSSPSFGVSPIDDIEQC
DQMRRVLITSEENYCATDFHDYDDVDIEEENDDMKIPPASQQQPQPKQKTSNFNSNILLY
NKKEEFSRTTRTVTTRVVTKATINGNDTMTLPTQSLTSSSSTSCSNTNRNLNSNIHHRIG
LVFNENGQLINRRQLLNAKNRDGLIFDECGRLLYTDNDETSSSLTPISILDDSTIEFIDS
STQNSDIQNRANMQNKCNNCNGSKLTISSSILSSCKSDWEFSKQQIKDELSEVVQEMESH
ESENKHSSKEKQMSIGRKKFNMDPKKGIEYLYENHLLKHDPQDVAQFLYKGEGLNKTAIG
DYLGEKNPFNEKVLKAFVELHDFTNLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYC
QLNPDIFTNADTCYVLSFAIIMLNTSLHNPSVKDKPTVEQFISMNRGVNNGDDLPRELLE
SLYESIRTEPFKIPQDDGNDLMHTFFNPDKEGWLWKQGGRYKSWKRRWFILNDNCLYYFE
FTTDKEPRGIIPLENIMVNINHIALNCMLRVVQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g6548.t4 CDD cd00171 Sec7 369 551 1.42916E-91
10 g6548.t4 Coils Coil Coil 343 370 -
9 g6548.t4 Gene3D G3DSA:1.10.220.20 - 364 442 4.2E-31
8 g6548.t4 Gene3D G3DSA:1.10.1000.11 - 443 566 9.3E-55
7 g6548.t4 Gene3D G3DSA:2.30.29.30 - 570 628 8.5E-21
3 g6548.t4 PANTHER PTHR10663:SF340 CYTOHESIN-1 343 618 9.9E-149
4 g6548.t4 PANTHER PTHR10663 GUANYL-NUCLEOTIDE EXCHANGE FACTOR 343 618 9.9E-149
1 g6548.t4 Pfam PF01369 Sec7 domain 370 551 3.7E-74
2 g6548.t4 Pfam PF00169 PH domain 569 619 7.9E-14
13 g6548.t4 ProSiteProfiles PS50190 SEC7 domain profile. 362 549 45.298
14 g6548.t4 ProSiteProfiles PS50003 PH domain profile. 567 634 10.351
12 g6548.t4 SMART SM00222 sec7_5 366 551 2.4E-101
6 g6548.t4 SUPERFAMILY SSF48425 Sec7 domain 369 559 6.54E-79
5 g6548.t4 SUPERFAMILY SSF50729 PH domain-like 563 620 2.14E-18

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:0032012 regulation of ARF protein signal transduction BP
GO:0005085 guanyl-nucleotide exchange factor 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