General information for g4729.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ral guanine nucleotide dissociation stimulator-like 1.
Parent gene
- The parent gene g4729 is located on chr_2: 4443990..4450104 (- 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 | g4729 | g4729.t4 | isoform | g4729.t4 | 4441636 | 4449886 |
| chr_2 | g4729 | g4729.t4 | exon | g4729.t4.exon1 | 4441636 | 4441884 |
| chr_2 | g4729 | g4729.t4 | cds | g4729.t4.CDS1 | 4441637 | 4441884 |
| chr_2 | g4729 | g4729.t4 | exon | g4729.t4.exon2 | 4441947 | 4442091 |
| chr_2 | g4729 | g4729.t4 | cds | g4729.t4.CDS2 | 4441947 | 4442091 |
| chr_2 | g4729 | g4729.t4 | exon | g4729.t4.exon3 | 4442151 | 4442258 |
| chr_2 | g4729 | g4729.t4 | cds | g4729.t4.CDS3 | 4442151 | 4442258 |
| chr_2 | g4729 | g4729.t4 | exon | g4729.t4.exon4 | 4443985 | 4444451 |
| chr_2 | g4729 | g4729.t4 | cds | g4729.t4.CDS4 | 4443985 | 4444320 |
| chr_2 | g4729 | g4729.t4 | exon | g4729.t4.exon5 | 4449730 | 4449886 |
| chr_2 | g4729 | g4729.t4 | TSS | g4729.t4 | 4450104 | 4450104 |
| chr_2 | g4729 | g4729.t4 | TTS | g4729.t4 | NA | NA |
Sequences
>g4729.t4 Gene=g4729 Length=1126
GTAGAAGAAAAAAATATGAAAAATTTGAATGTCAAATCAAGTTTATTTATTTATGTCTTT
AGAATGTTCAAAAATTCTTTCGTGATAATGAAAAAAATTGTTTGCAAAAAATAAACAAAA
ACAACTTGTTGAATCCTCTTCATTTTTGAAAAAATCAATTTTTATGTCTTTCTTCTCAAG
TGATATAAGAGAAATAGCCAGAAGTAGAAAAAGGATAAAAATAAAGCTCTATAGTGAAAA
AAGATAAAGTAAACAAGTGAGGTGTTGATAGAAAAAGATAAAAAAACAATGTTTTGTCCA
AACAACAAGACACTTCAGGATATAACAGAAAAAACAAAGCTACTTGCACAAAAATGCTCG
CAGCAAATTCGTGTGTCATTAGAGCAGTCAAGCAATCAACAGGTGTCATCATCATTCAAG
AGTTACCTCAATAAGAATGAAAATGAAGAAAATGAAGCAATTGGCTCAGAAAATCAATCG
ACATCGCCAACAATAAATTGTCTTACCACAAATCTTTCAAACATAAATCGATTGATTAAA
GATCGTTGCAATATTTTAAATTTGCAATGTAATACATTGCCTAGAATGCTACCAAAAAGA
GCAAGTACAAAATGGTATATAAAACAGCCCACTTGGCGACTTTGGGGTGAGGAGCGCGAC
AAGGATGCCATTTATACAGTCTATTTGAAAAAGGTTCGATATCATCGTCCGACACCAAGC
GTAACAAATTCTAATGACAGTGACGACGAAATAAGTCATTTGGAGTGGGAGACCGTGAGA
GTTCGATTTGTTAAGGCTGCGACACTTGAACGACTTGTTGATGCTTTAGTTACTGATGAT
GGCGAATTAGAGAGCACTTTTGTCAATGTTTTTTTAGCAACATATCGAACATTTACAAAA
ACACAAAAAGTTTTGGAACTTTTATTAGAAAAGTTTGAGAATCTCAGCAATACTGATGCA
TATAAGAAAACTTTAATCTCAGTACTTCATTTATGGCTTGATGGCTATCCAGAAGATTGG
GAGGATGAAAATTTACAAATTCTTTTAACTTTCACATCATCACGTTTACCAAATTCAAAA
ATTCATATGAAAGCTTTGGCAAAATTTAGTGAAAGATTAGACAAAT
>g4729.t4 Gene=g4729 Length=279
MFCPNNKTLQDITEKTKLLAQKCSQQIRVSLEQSSNQQVSSSFKSYLNKNENEENEAIGS
ENQSTSPTINCLTTNLSNINRLIKDRCNILNLQCNTLPRMLPKRASTKWYIKQPTWRLWG
EERDKDAIYTVYLKKVRYHRPTPSVTNSNDSDDEISHLEWETVRVRFVKAATLERLVDAL
VTDDGELESTFVNVFLATYRTFTKTQKVLELLLEKFENLSNTDAYKKTLISVLHLWLDGY
PEDWEDENLQILLTFTSSRLPNSKIHMKALAKFSERLDK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4729.t4 | CDD | cd06224 | REM | 172 | 270 | 0.000 |
| 6 | g4729.t4 | Gene3D | G3DSA:1.20.870.10 | Son of sevenless (SoS) protein Chain: S domain 1 | 107 | 272 | 0.000 |
| 2 | g4729.t4 | PANTHER | PTHR23113:SF312 | RAL GUANINE NUCLEOTIDE DISSOCIATION STIMULATOR-LIKE, ISOFORM E | 95 | 273 | 0.000 |
| 3 | g4729.t4 | PANTHER | PTHR23113 | GUANINE NUCLEOTIDE EXCHANGE FACTOR | 95 | 273 | 0.000 |
| 1 | g4729.t4 | Pfam | PF00618 | RasGEF N-terminal motif | 168 | 248 | 0.000 |
| 7 | g4729.t4 | ProSiteProfiles | PS50212 | Ras guanine-nucleotide exchange factors N-terminal domain profile. | 164 | 279 | 25.136 |
| 5 | g4729.t4 | SMART | SM00229 | rasgefn_5 | 163 | 278 | 0.000 |
| 4 | g4729.t4 | SUPERFAMILY | SSF48366 | Ras GEF | 147 | 264 | 0.000 |
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:0007264 | small GTPase mediated 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.
