General information for g6548.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytohesin-1.
Parent gene
- The parent gene g6548 is located on chr_2: 17606925..17607974 (+ strand)
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.t7 | isoform | g6548.t7 | 17603797 | 17605763 |
| chr_2 | g6548 | g6548.t7 | exon | g6548.t7.exon1 | 17603797 | 17604023 |
| chr_2 | g6548 | g6548.t7 | cds | g6548.t7.CDS1 | 17603855 | 17604023 |
| chr_2 | g6548 | g6548.t7 | exon | g6548.t7.exon2 | 17604095 | 17604272 |
| chr_2 | g6548 | g6548.t7 | cds | g6548.t7.CDS2 | 17604095 | 17604272 |
| chr_2 | g6548 | g6548.t7 | exon | g6548.t7.exon3 | 17604343 | 17604436 |
| chr_2 | g6548 | g6548.t7 | cds | g6548.t7.CDS3 | 17604343 | 17604436 |
| chr_2 | g6548 | g6548.t7 | exon | g6548.t7.exon4 | 17604516 | 17604623 |
| chr_2 | g6548 | g6548.t7 | cds | g6548.t7.CDS4 | 17604516 | 17604623 |
| chr_2 | g6548 | g6548.t7 | exon | g6548.t7.exon5 | 17604697 | 17605763 |
| chr_2 | g6548 | g6548.t7 | cds | g6548.t7.CDS5 | 17604697 | 17604849 |
| chr_2 | g6548 | g6548.t7 | TSS | g6548.t7 | NA | NA |
| chr_2 | g6548 | g6548.t7 | TTS | g6548.t7 | NA | NA |
Sequences
>g6548.t7 Gene=g6548 Length=1674
CTTCAGGCAATTTTTATGGAGCTTTCGACTGCCGGGTGAGGCACAGAAAATTGATAGAAT
GATGGAGTGCTTTGCACAACGCTACTGTCAATTAAATCCTGACATCTTTACTAACGCCGA
CACATGTTATGTTTTGAGTTTCGCCATTATTATGTTGAACACTTCTCTTCATAATCCATC
TGTTAAAGATAAACCAACTGTCGAGCAATTTATTTCAATGAATCGAGGTGTGAATAACGG
AGATGATTTACCACGAGAGCTTTTAGAATCACTTTACGAATCAATAAGAACCGAGCCATT
TAAAATTCCACAAGATGATGGCAATGATTTAATGCATACATTCTTCAATCCCGATAAAGA
AGGTTGGTTATGGAAACAAGGAGGGCGCTATAAGTCGTGGAAAAGACGATGGTTTATCCT
TAACGATAATTGTCTTTATTACTTTGAATTTACAACTGATAAAGAACCAAGAGGCATTAT
ACCGCTAGAAAACATTATGGTTCGTGAGTGCAAGGCCACTGATAAAAGTAAACCACATTG
CTTTGAATTGTATGCTTCGGGTGGTGCAGAAATAATCAAGGCCTGTAAAACGGATTCAGA
GGGCAAGGTTGTTGAGGGTAAACATACAGTTTATCGAATGTCTGCTGCTACTGAGGAGGA
AAAGAATGAATGGATAAGACTTTTGAAACATTCAATTGCCCATAATCCGTTTTATGACAT
TTTGGTACAAAGGAAGAAGAAGGCGCTTGTTAAGAGTTAGTAGATTGTAAGGAGTAAATA
AACGCACTCGCATCAAAGCTTGTTCCTTCATTTAAAAGGTCAACGGCAGAAACGACAATT
CAGTCTCATTTCTAAAACATGTATAATCATAATTTTCTTTTTAATCATCACATTAAAACA
ACCATCATCAACGATAATCTAAATCTTATATTATACGCTGCAATTCAATTAGTAACACAC
ATACGCAAAACCAAGGGGAAAAAATTCATTCATCATAAAAAATGAATGTATTCTTCCGAT
TATTTTATTGCTTTACCTCATTACACAATTTATTACTAGCGGTGTGTGTTTTGAGTCCCT
GTGTGTGTATATGATTGTGCTTTTTTGCAGTTAAAAGGGGTCAACATGAAAGAGGAAAAA
TGGCATCCATAAAAATGATAATCATGAGACACGTCAATAATGATAATTCGTAAAGTGCTT
TTAATGTTCTCATTGTTTCAAATAAATTAATTTATTATGACAATTTTAATTTCAATAAAT
TTTCTGCAATTTGCTTCCATATTTTTCTGAAAAAAATGAGAAAAGCCTGAGTAGAAAAGG
TCGATCACGACAAATAACAATGATGATGATATGTATTGATGCCAAAATTTCTTTGCAATT
ATTTCATTTTTTTTGTAAATTGATAAATTTTAATAACTTCCAGGAATGCATAACTCAAAT
GAAAATTTTCACTTGAGATTTGATGCTTCATTTTCATAAAATATAAATTTAAATCATACA
ATACAAAAATTTTACATAAAATTTTATACCTAAGTGGAAACGATTTGTACCAAGTAAAGA
GAGTTGCATGCAAACAACAGAAAGTTTTATATATTTCGAGCAGAAAAAAGAAGAAATCAA
TCTTATATCCCTGAAAACTTTTCTTCTCTCATTCATATCACTGAAACTCATAAA
>g6548.t7 Gene=g6548 Length=233
MMECFAQRYCQLNPDIFTNADTCYVLSFAIIMLNTSLHNPSVKDKPTVEQFISMNRGVNN
GDDLPRELLESLYESIRTEPFKIPQDDGNDLMHTFFNPDKEGWLWKQGGRYKSWKRRWFI
LNDNCLYYFEFTTDKEPRGIIPLENIMVRECKATDKSKPHCFELYASGGAEIIKACKTDS
EGKVVEGKHTVYRMSAATEEEKNEWIRLLKHSIAHNPFYDILVQRKKKALVKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6548.t7 | CDD | cd01252 | PH_GRP1-like | 96 | 216 | 0.000000 |
| 9 | g6548.t7 | Gene3D | G3DSA:1.10.1000.11 | - | 1 | 96 | 0.000000 |
| 8 | g6548.t7 | Gene3D | G3DSA:2.30.29.30 | - | 97 | 225 | 0.000000 |
| 3 | g6548.t7 | PANTHER | PTHR10663:SF315 | CYTOHESIN 4A-RELATED | 1 | 229 | 0.000000 |
| 4 | g6548.t7 | PANTHER | PTHR10663 | GUANYL-NUCLEOTIDE EXCHANGE FACTOR | 1 | 229 | 0.000000 |
| 1 | g6548.t7 | Pfam | PF01369 | Sec7 domain | 1 | 81 | 0.000000 |
| 2 | g6548.t7 | Pfam | PF00169 | PH domain | 99 | 213 | 0.000000 |
| 10 | g6548.t7 | ProSiteProfiles | PS50190 | SEC7 domain profile. | 1 | 79 | 20.010000 |
| 11 | g6548.t7 | ProSiteProfiles | PS50003 | PH domain profile. | 97 | 214 | 18.613000 |
| 7 | g6548.t7 | SMART | SM00222 | sec7_5 | 1 | 81 | 0.000037 |
| 6 | g6548.t7 | SMART | SM00233 | PH_update | 98 | 216 | 0.000000 |
| 5 | g6548.t7 | SUPERFAMILY | SSF50729 | PH domain-like | 5 | 214 | 0.000000 |
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
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
