General information for g5380.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Rho GTPase-activating protein 92B.
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.t3 | isoform | g5380.t3 | 9291344 | 9294467 |
| chr_2 | g5380 | g5380.t3 | exon | g5380.t3.exon1 | 9291344 | 9291519 |
| chr_2 | g5380 | g5380.t3 | cds | g5380.t3.CDS1 | 9291344 | 9291519 |
| chr_2 | g5380 | g5380.t3 | exon | g5380.t3.exon2 | 9291894 | 9292135 |
| chr_2 | g5380 | g5380.t3 | cds | g5380.t3.CDS2 | 9291894 | 9292135 |
| chr_2 | g5380 | g5380.t3 | exon | g5380.t3.exon3 | 9293763 | 9294467 |
| chr_2 | g5380 | g5380.t3 | cds | g5380.t3.CDS3 | 9293763 | 9293809 |
| chr_2 | g5380 | g5380.t3 | TSS | g5380.t3 | 9294476 | 9294476 |
| chr_2 | g5380 | g5380.t3 | TTS | g5380.t3 | NA | NA |
Sequences
>g5380.t3 Gene=g5380 Length=1123
AAACTTCAACTCTTCTGACTGTGACTGTAAAGAAATTAATTTTTTTATCAATTTTTTCCA
ATTTCAAGCATTTAATTAGTTCTTAAATTAGTTAGTTAAAGTTCTCGTGTTGTTGGCATT
TTAAAAATTGTGAAGTTCAATCAATAATCATATTGAAAAGCATCAAAAATGTATGTCAAT
GTCAATTTGTAGACGATCGAGTGAAAAAAAGAAGACTCAGATGATTCATTAGTTGCTTTG
AAGTGGTTCTCTCTCTCTCTCTCTCTCTCTCGCTCATCGAAAAGTGAAGCAAGAATCGCT
CATAAATGCCTTTTTATCAATTTCTTTCGAATACATGCATAGCCCTTATCAGAGGCTAAT
TTTTATCAATTACCACAATCAAGGAGAGCAGTGAGAGAGAGAAAAATAAAAATATAAAGA
GTTCATTTGCAGACACATACTAGAAAACAAGGAATAAACGTAAAAGAATGAAACTGAAAG
TGCTTTAATTTATTTTCCTCTCACTCGCTCGCCACCGTGCATTTTTTTCTACTAATAACA
AAAATAATATTTGAAATTGATAAGGAAAAAAGAGAGGCGAAAAGCAAAAGTGTTTTGTAA
AGTTTTTTACTCTGTTATTTATGTGACTGTGACTGTACATTGAATTATTAGTAGCAGCAT
GAAGAAGCAATTTCAAAAGATTAAAATTGCAGCAGAAAATCTCAGGTCCACAAAGCCAGA
GAAAAACGATGAGTTGCAACACATAGAAAAGCAAGTTGATCGTTATAAAGATGTCTTAAC
AACAATTACAAAGAAAATTTCAACAAATGCAATTTCTGGTCATGATGCTTCAGCAAAAGA
AAAGCGTATTAAAAAAACGCAAGAATATATGCTTGCACAGGCAATGGAAGATTGTGCACG
AGATTTACCGGAAAATGGATTACTCAAAAAGATATTGGAAGATTGTTCGAGACTCGAGAA
AACAATTGCGTCAGAGATTGTGAATAATGAGGTGAATATTGAAAATGATGTGAATAAGAA
GCTGAACAGCATAATAGAGCATCAAATCCAAGCAATTCAGAAGCAAAAGCGCATTGTTGC
CAAGTGCCATCAAGACAATGAAGCTGCCAAGCAAAAACATCAG
>g5380.t3 Gene=g5380 Length=155
MKKQFQKIKIAAENLRSTKPEKNDELQHIEKQVDRYKDVLTTITKKISTNAISGHDASAK
EKRIKKTQEYMLAQAMEDCARDLPENGLLKKILEDCSRLEKTIASEIVNNEVNIENDVNK
KLNSIIEHQIQAIQKQKRIVAKCHQDNEAAKQKHQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5380.t3 | Coils | Coil | Coil | 12 | 32 | - |
| 4 | g5380.t3 | Coils | Coil | Coil | 140 | 155 | - |
| 3 | g5380.t3 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 1 | 155 | 3.2E-22 |
| 1 | g5380.t3 | PANTHER | PTHR14130 | 3BP-1 RELATED RHOGAP | 1 | 154 | 8.3E-24 |
| 2 | g5380.t3 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 18 | 155 | 8.37E-22 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5380/g5380.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5380.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
