General information for g10037.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ras-specific guanine nucleotide-releasing factor 1.
Parent gene
- The parent gene g10037 is located on chr_1: 6910892..6912501 (+ 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_1 | g10037 | g10037.t4 | isoform | g10037.t4 | 6910892 | 6912501 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon1 | 6910892 | 6910934 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon2 | 6911057 | 6911137 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon3 | 6911243 | 6911405 |
| chr_1 | g10037 | g10037.t4 | cds | g10037.t4.CDS1 | 6911250 | 6911405 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon4 | 6911471 | 6911668 |
| chr_1 | g10037 | g10037.t4 | cds | g10037.t4.CDS2 | 6911471 | 6911668 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon5 | 6911749 | 6911994 |
| chr_1 | g10037 | g10037.t4 | cds | g10037.t4.CDS3 | 6911749 | 6911937 |
| chr_1 | g10037 | g10037.t4 | exon | g10037.t4.exon6 | 6912096 | 6912501 |
| chr_1 | g10037 | g10037.t4 | TSS | g10037.t4 | NA | NA |
| chr_1 | g10037 | g10037.t4 | TTS | g10037.t4 | NA | NA |
Sequences
>g10037.t4 Gene=g10037 Length=1137
AGAATTTTTGGGTCAAGCTTGGATGAAGTCTGATAAACGGCAAGAATAGAGCGGAGCACA
TAATTCAGATGACGAAGAGATTTAATGATGGCTCTAGGCTCGTGGGCTCAGAAATTGTTT
CTAGATGTAATATGGCAGCACGTGTTGCAGCAATTGAGAAATGGACGGCTGTTGCTGATA
TTTGTCGATGTTTACATAATTTCAATGGTGTTTTACAAATTTGTGCTGCTTTTACGAGTG
CACCGATTTATCGAATGAAAAAAACATGGGATAAAGTGCCCAAAAATATTAAGTCAACCA
TAACAAAATTGCAAGCAGTCGTTTGCTCAGATGGTCGATTTCGTGTAATGCGTGAGGCAT
TACATCGTTGTGATCCACCATGTATACCATATCTAGGCATGTATTTAACTGATTTGTCAT
TTATTGAAGAAGGCACACCCGATTTTACGCCCGATGGTTTGTTAAATTTTTCGAAAATGA
GAATGATTGCGCACGTAATTCGAGAGATTCGACACTTTCAACAAACGCCATACAAAATCG
ATCACATTCCAAAAGTGACTTCTTACTTACTCGACACTTCTCTACTTCTTGATGATGACG
AGATGTATCATAAATCATTGCGAATTGAGCCAAGAAGTTCACGATTAAGTGCACCAAATG
TGACACTAGTATAAATTCTTTATCTCTTGTTCTTTCCATTGGATGGATGGTTGTATGACA
GATACATTTCCACGTGTAAATTTTTATTACTTACTATTACTTATGAAAGATAGAACCTAT
CTACATACATTTTTATCCTACTTAATAATAATGATATCGTTGATCCTTTTTATCCTCGAT
AAAGAAGTATAACACAATTGTATATAGTGCAAAAAAATACAAAAAATGATCATTATATTT
TTATCGATTTCCCTCGACAATCAACTTATGAGACTCAAAACTAAAAAAATTGTTGTTGCA
TAAAGTATTTTTAAAAATGAATCTAATATTTAATGAAATTGTTCCCGAAAAAATTAATTG
AAATCACTTTATAAAATTTAAGAGAAGCACTGCTACCAACATTTAAAAGATTTAAAGAAT
GTTTTTAATTTTCATGTGATATTTTAAGTAAGTAAGCAACTTTTAGCATAAAATAAA
>g10037.t4 Gene=g10037 Length=180
MAARVAAIEKWTAVADICRCLHNFNGVLQICAAFTSAPIYRMKKTWDKVPKNIKSTITKL
QAVVCSDGRFRVMREALHRCDPPCIPYLGMYLTDLSFIEEGTPDFTPDGLLNFSKMRMIA
HVIREIRHFQQTPYKIDHIPKVTSYLLDTSLLLDDDEMYHKSLRIEPRSSRLSAPNVTLV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10037.t4 | CDD | cd00155 | RasGEF | 4 | 142 | 2.00739E-55 |
| 5 | g10037.t4 | Gene3D | G3DSA:1.10.840.10 | Son of sevenless (Sos) protein Chain | 1 | 170 | 2.9E-65 |
| 2 | g10037.t4 | PANTHER | PTHR23113:SF187 | RAS-SPECIFIC GUANINE NUCLEOTIDE-RELEASING FACTOR 2 | 2 | 168 | 1.2E-77 |
| 3 | g10037.t4 | PANTHER | PTHR23113 | GUANINE NUCLEOTIDE EXCHANGE FACTOR | 2 | 168 | 1.2E-77 |
| 1 | g10037.t4 | Pfam | PF00617 | RasGEF domain | 3 | 117 | 1.1E-35 |
| 7 | g10037.t4 | ProSitePatterns | PS00720 | Ras Guanine-nucleotide exchange factors domain signature. | 85 | 115 | - |
| 9 | g10037.t4 | ProSiteProfiles | PS50009 | Ras guanine-nucleotide exchange factors catalytic domain profile. | 1 | 168 | 50.2 |
| 8 | g10037.t4 | SMART | SM00147 | RasGEF_3 | 1 | 169 | 2.8E-29 |
| 4 | g10037.t4 | SUPERFAMILY | SSF48366 | Ras GEF | 3 | 172 | 3.14E-65 |
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:0046578 | regulation of Ras protein signal transduction | BP |
| GO:0007264 | small GTPase mediated signal transduction | BP |
| GO:0035023 | regulation of Rho 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. There were no conditions that were differentially expressed