General information for g5380.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5380 is located on chr_2: 9291344..9294467 (- 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 | g5380 | g5380.t2 | isoform | g5380.t2 | 9288657 | 9291519 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon1 | 9288657 | 9289045 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon2 | 9289162 | 9289267 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon3 | 9289530 | 9289759 |
| chr_2 | g5380 | g5380.t2 | cds | g5380.t2.CDS1 | 9289608 | 9289759 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon4 | 9290193 | 9290264 |
| chr_2 | g5380 | g5380.t2 | cds | g5380.t2.CDS2 | 9290193 | 9290264 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon5 | 9290422 | 9290590 |
| chr_2 | g5380 | g5380.t2 | cds | g5380.t2.CDS3 | 9290422 | 9290482 |
| chr_2 | g5380 | g5380.t2 | exon | g5380.t2.exon6 | 9291344 | 9291519 |
| chr_2 | g5380 | g5380.t2 | TSS | g5380.t2 | 9291478 | 9291478 |
| chr_2 | g5380 | g5380.t2 | TTS | g5380.t2 | NA | NA |
Sequences
>g5380.t2 Gene=g5380 Length=1142
CGAGACTCGAGAAAACAATTGCGTCAGAGATTGTGAATAATGAGGTGAATATTGAAAATG
ATGTGAATAAGAAGCTGAACAGCATAATAGAGCATCAAATCCAAGCAATTCAGAAGCAAA
AGCGCATTGTTGCCAAGTGCCATCAAGACAATGAAGCTGCCAAGCAAAAACATCAGAGTG
CCGTTCGATTAAATGAGAATTTGACAAAAATAAATCAATTAAAAGACGACCAAGAAGAGT
GCGAGACGCGATTAGAGAAGGAACGTGACATTTATGCATCCAATATGTTTGACTTGTTAG
CAGAAGAAGACAACATCTCCAATTACATTCTTAATTACGTTAAATATCAACAACTCTATT
ATAAATCTGCACTTAAGGAGATTGAAGCATTAATGGGTGATATGAATGGTCTGATAAGAA
GCAGTAATAAAAGAGTTTTTAATACATCTCTGAAAGACCATCTTGATACAAGTGGAAGAA
AAATTTCTTACGTAATTGAATTGTGTGTTTGTTGTTTGCTTGAAAAGGGACTTTATGAAG
AAGGATTATTACGAGTTGGTTGTGGTTAGTTGATTTTAAATTTTTTATAACTCAATACTA
ATGAAAAAATTAATTTAAAGGCAAAAGTAAATTAATGAGAATGCGGATGAGAAAAATCAG
CACAATAAAATGTCAACGTCAAATATTGCCATTGTCATGTCGCCAAATTTGCTGTGGCCG
CAAAATGAAAATGATCAGAATTATGCGCAACAGGTCTCATCAACATCGGCTGTGAATTCA
ATAATTGAGACACTTATAAGTGACTGGGATTTCTTTTTTGAAGGTGAAGTCAACTTTTAT
GAAACAATGACTCGAGATGAGTTGTTTCCAGACAACGGTGGATTTCCTTATGATAAAGAA
CAGCCGATAACAAAGCACAACGATCTTGGTATGTCAACATCGATGTATGTTGGTGCAAAT
AATGGACCGGGCATGCATGCAACTAAAATGTCGCATTCACGTTCAAGTAGTCATGATACT
AGTCTCATATTGTTAAGTGAAAACAATCAAGCCGCATTAAAGTCAAGTCAGTCAAATAGT
TCACTCTCCGACCAAAGTCCTACCACGGGATCACCAAAGTTACCAACGAGGAGAAAACAA
AA
>g5380.t2 Gene=g5380 Length=94
MFDLLAEEDNISNYILNYVKYQQLYYKSALKEIEALMGDMNGLIRSSNKRVFNTSLKDHL
DTSGRKISYVIELCVCCLLEKGLYEEGLLRVGCG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g5380.t2 | Gene3D | G3DSA:1.10.555.10 | - | 40 | 94 | 0.0000036 |
| 1 | g5380.t2 | PANTHER | PTHR14130:SF14 | RHO GTPASE-ACTIVATING PROTEIN 92B | 1 | 93 | 0.0000000 |
| 2 | g5380.t2 | PANTHER | PTHR14130 | 3BP-1 RELATED RHOGAP | 1 | 93 | 0.0000000 |
| 5 | g5380.t2 | ProSiteProfiles | PS50238 | Rho GTPase-activating proteins domain profile. | 54 | 94 | 9.3810000 |
| 3 | g5380.t2 | SUPERFAMILY | SSF48350 | GTPase activation domain, GAP | 48 | 92 | 0.0000110 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5380/g5380.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5380.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0007165 | signal transduction | BP |
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.
