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.t5 isoform g6548.t5 17602005 17604272
chr_2 g6548 g6548.t5 exon g6548.t5.exon1 17602005 17602131
chr_2 g6548 g6548.t5 cds g6548.t5.CDS1 17602041 17602131
chr_2 g6548 g6548.t5 exon g6548.t5.exon2 17602463 17602561
chr_2 g6548 g6548.t5 cds g6548.t5.CDS2 17602463 17602561
chr_2 g6548 g6548.t5 exon g6548.t5.exon3 17602632 17602731
chr_2 g6548 g6548.t5 cds g6548.t5.CDS3 17602632 17602731
chr_2 g6548 g6548.t5 exon g6548.t5.exon4 17603803 17604023
chr_2 g6548 g6548.t5 cds g6548.t5.CDS4 17603803 17604023
chr_2 g6548 g6548.t5 exon g6548.t5.exon5 17604095 17604272
chr_2 g6548 g6548.t5 cds g6548.t5.CDS5 17604095 17604270
chr_2 g6548 g6548.t5 TSS g6548.t5 NA NA
chr_2 g6548 g6548.t5 TTS g6548.t5 NA NA

Sequences

>g6548.t5 Gene=g6548 Length=725
CAAATTAAGGATGAGCTTAGTGAAGTAGTACAAGAGATGGAATCACATGAGTCCGAAAAT
AAGCATTCCAGTAAGGAAAAGCAAATGTCGATAGGACGGAAAAAGTTCAATATGGATCCG
AAAAAAGGTATCGAATATCTTTACGAGAACCATCTTCTCAAACATGATCCACAAGATGTG
GCGCAATTTTTGTATAAAGGAGAAGGATTAAATAAAACAGCAATCGGTGACTATCTAGGC
GAGAAAAATCCATTCAATGAGAAAGTTTTGAAAGCTTTTGTTGAACTTCATGACTTTACA
AATCTTATTTTAGTGCAAGCTTTAAGGCAATTTTTATGGAGCTTTCGACTGCCGGGTGAG
GCACAGAAAATTGATAGAATGATGGAGTGCTTTGCACAACGCTACTGTCAATTAAATCCT
GACATCTTTACTAACGCCGACACATGTTATGTTTTGAGTTTCGCCATTATTATGTTGAAC
ACTTCTCTTCATAATCCATCTGTTAAAGATAAACCAACTGTCGAGCAATTTATTTCAATG
AATCGAGGTGTGAATAACGGAGATGATTTACCACGAGAGCTTTTAGAATCACTTTACGAA
TCAATAAGAACCGAGCCATTTAAAATTCCACAAGATGATGGCAATGATTTAATGCATACA
TTCTTCAATCCCGATAAAGAAGGTTGGTTATGGAAACAAGGAGGGCGCTATAAGTCGTGG
AAAAG

>g6548.t5 Gene=g6548 Length=229
MESHESENKHSSKEKQMSIGRKKFNMDPKKGIEYLYENHLLKHDPQDVAQFLYKGEGLNK
TAIGDYLGEKNPFNEKVLKAFVELHDFTNLILVQALRQFLWSFRLPGEAQKIDRMMECFA
QRYCQLNPDIFTNADTCYVLSFAIIMLNTSLHNPSVKDKPTVEQFISMNRGVNNGDDLPR
ELLESLYESIRTEPFKIPQDDGNDLMHTFFNPDKEGWLWKQGGRYKSWK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g6548.t5 CDD cd00171 Sec7 13 195 1.36694E-97
6 g6548.t5 Gene3D G3DSA:1.10.220.20 - 8 86 7.5E-32
5 g6548.t5 Gene3D G3DSA:1.10.1000.11 - 87 210 1.1E-55
9 g6548.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
2 g6548.t5 PANTHER PTHR10663:SF315 CYTOHESIN 4A-RELATED 4 229 1.1E-122
3 g6548.t5 PANTHER PTHR10663 GUANYL-NUCLEOTIDE EXCHANGE FACTOR 4 229 1.1E-122
1 g6548.t5 Pfam PF01369 Sec7 domain 14 195 2.8E-75
10 g6548.t5 ProSiteProfiles PS50190 SEC7 domain profile. 6 193 45.298
8 g6548.t5 SMART SM00222 sec7_5 10 195 2.4E-101
4 g6548.t5 SUPERFAMILY SSF48425 Sec7 domain 13 203 4.58E-80

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. There were no conditions that were differentially expressed