General information for g8896.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Rho GDP-dissociation inhibitor 1.
Parent gene
- The parent gene g8896 is located on chr_2: 33736533..33738352 (+ 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 | g8896 | g8896.t3 | TSS | g8896.t3 | 33736466 | 33736466 |
| chr_2 | g8896 | g8896.t3 | isoform | g8896.t3 | 33736533 | 33738352 |
| chr_2 | g8896 | g8896.t3 | exon | g8896.t3.exon1 | 33736533 | 33737113 |
| chr_2 | g8896 | g8896.t3 | cds | g8896.t3.CDS1 | 33736533 | 33737113 |
| chr_2 | g8896 | g8896.t3 | exon | g8896.t3.exon2 | 33737241 | 33738352 |
| chr_2 | g8896 | g8896.t3 | cds | g8896.t3.CDS2 | 33737241 | 33737259 |
| chr_2 | g8896 | g8896.t3 | TTS | g8896.t3 | 33738349 | 33738349 |
Sequences
>g8896.t3 Gene=g8896 Length=1693
ATGTCGACTGAAAATCAAGATAACTTTCCTGAAGAAGAGCATGAAAATTACCAACCACCG
CCCCAAAAGACGATTGAAGAGTTATTGTCATTAGATCAAGAAGATGAGAGTCTGCGAAAA
TATAAAGAAAAATTACTTGGTGCACAAGCTGATAAGATCATCATTGATGCAAATAATCCA
AAGAATGTTATTGTGAAGCGGTTAGCACTTGTAGTTGAAGGACGTGATGACATGGTTTTG
GATTTAAGCGGCGACCTCAGCATGCTCAAAAAACAAACTTTTACTATCAAGGAAGGAGTT
CAATATAAAATTCGAATTGAATTCTTTGTTCAACGTGAAATTGTCCATGGTTTAAAATAT
GTGCAAAAAACTTATCGATTGTCTGTCCCTGTTGATAAAATGACCCACATGGTTGGTTCT
TATCCACCAAAAGAAACAATACAGCATTTTTTGACACCATTCGAAGAAGCTCCCTCAGGA
ATGCTTGCAAGAGGAGAATACACAATATCAAGTCTATTTACTGATGATGATAAAAATGAA
CATTTAAAATGGGAATGGACACTGAAAGTTGAGAAAGATTGGACAAAAAATAATAATTAA
CACCAACTATTCACCTACACTCTTCAATGATTATAATCAATATTTGATGCAACAATTATT
ACAATTTTTTATCTAACAATTCAAGTTATTACACTTATATATACTTCCAATCGATTTGAG
TGTTTTAAAATTGATTTATTGCCATCTTAAACATGCATACACACACACATTTATAACATG
ATATAAAAATTCTAATCAAAACTAATCCATTAAGCGATAAAACATAATTGCCTTTATGCT
GTTGATGCGAGACATAGGACGATATTTTTTTTGTGTATCATACCTCTTTTTTTATTATGA
TTTTATTTTCTAGTATATTCTTGATCCCCTTATTTTGTTTTGCTTTTATTATTCACATGA
GTGCGTCATTGATTAATTTAGTATTAAATTGTGTCATTTTATACATTATATTATATCGAA
ATTACATATATACACACAAGCAAAATTTGCTTCTCAATAAAGAGAAAATAATGAAAATTA
TTCATTTTACCACGCATTTAAAAATTTATTAAAAGAAATGAAATATAGAGAAAAACTTAA
GTATTAAAAGTCTGTAAAATCTTAATCCAAAGTTTACTATCCTATGAAGTATTTTTATAA
AAAAGAACATATTCAATTTATGTATTTTTCCCCAATTTAAAAAGAAACGTATGCTTTCTA
AGAAAAAAGCAGCATGATAGAAGAAAGAAGAAAGTTTACATTATCGCTCGCTCAATACGA
TTTTATTTTCGCTTTTAATAGTTTATTAATAAAATGAAGATAATCAAATGCATGCGTTGA
AACGATTTATATTTATATCATTCAATTAGTGAGGAGATAAATCGTTTTCATACCTATTAA
ATCAGTAGCAATTATACGAAATGCCTTAGACGTTTAGCTTTTCTGGACCAAACAATAAAA
GTGTTTAAATACAGATGAAAAATGTATATCTCATATTTAGGCTTTTGTATTTTAAAAATC
CATTTTTGATTTAATTCAATTTTAAAGCAACATTGATGAGATGTGTTTTTTGCCAAATAA
AATTTAATTCAACAATTGTAACCATTTTTTAAAGAACAATAAAAGTGAAAGGTCCATCTT
CCAAAATCATAAA
>g8896.t3 Gene=g8896 Length=199
MSTENQDNFPEEEHENYQPPPQKTIEELLSLDQEDESLRKYKEKLLGAQADKIIIDANNP
KNVIVKRLALVVEGRDDMVLDLSGDLSMLKKQTFTIKEGVQYKIRIEFFVQREIVHGLKY
VQKTYRLSVPVDKMTHMVGSYPPKETIQHFLTPFEEAPSGMLARGEYTISSLFTDDDKNE
HLKWEWTLKVEKDWTKNNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g8896.t3 | Coils | Coil | Coil | 31 | 51 | - |
| 11 | g8896.t3 | Gene3D | G3DSA:2.70.50.30 | Coagulation Factor XIII | 13 | 196 | 1.3E-74 |
| 10 | g8896.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - |
| 2 | g8896.t3 | PANTHER | PTHR10980:SF15 | RHO GDP-DISSOCIATION INHIBITOR 2 | 9 | 195 | 8.3E-66 |
| 3 | g8896.t3 | PANTHER | PTHR10980 | RHO GDP-DISSOCIATION INHIBITOR | 9 | 195 | 8.3E-66 |
| 8 | g8896.t3 | PRINTS | PR00492 | RHO protein GDP dissociation inhibitor signature | 53 | 68 | 5.0E-20 |
| 4 | g8896.t3 | PRINTS | PR00492 | RHO protein GDP dissociation inhibitor signature | 114 | 130 | 5.0E-20 |
| 6 | g8896.t3 | PRINTS | PR00492 | RHO protein GDP dissociation inhibitor signature | 131 | 146 | 5.0E-20 |
| 5 | g8896.t3 | PRINTS | PR00492 | RHO protein GDP dissociation inhibitor signature | 147 | 159 | 5.0E-20 |
| 7 | g8896.t3 | PRINTS | PR00492 | RHO protein GDP dissociation inhibitor signature | 173 | 190 | 5.0E-20 |
| 1 | g8896.t3 | Pfam | PF02115 | RHO protein GDP dissociation inhibitor | 4 | 193 | 7.5E-67 |
| 9 | g8896.t3 | SUPERFAMILY | SSF81296 | E set domains | 4 | 195 | 2.1E-69 |
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:0005094 | Rho GDP-dissociation inhibitor activity | MF |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K12462 (Rho GDP-dissociation inhibitor)
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