Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Ral guanine nucleotide dissociation stimulator-like 1.

Parent gene

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.t3 isoform g4729.t3 4441636 4444320
chr_2 g4729 g4729.t3 exon g4729.t3.exon1 4441636 4441884
chr_2 g4729 g4729.t3 cds g4729.t3.CDS1 4441637 4441884
chr_2 g4729 g4729.t3 exon g4729.t3.exon2 4441947 4442091
chr_2 g4729 g4729.t3 cds g4729.t3.CDS2 4441947 4442091
chr_2 g4729 g4729.t3 exon g4729.t3.exon3 4442151 4442258
chr_2 g4729 g4729.t3 cds g4729.t3.CDS3 4442151 4442258
chr_2 g4729 g4729.t3 exon g4729.t3.exon4 4443985 4444320
chr_2 g4729 g4729.t3 cds g4729.t3.CDS4 4443985 4444320
chr_2 g4729 g4729.t3 TSS g4729.t3 NA NA
chr_2 g4729 g4729.t3 TTS g4729.t3 NA NA

Sequences

>g4729.t3 Gene=g4729 Length=838
ATGTTTTGTCCAAACAACAAGACACTTCAGGATATAACAGAAAAAACAAAGCTACTTGCA
CAAAAATGCTCGCAGCAAATTCGTGTGTCATTAGAGCAGTCAAGCAATCAACAGGTGTCA
TCATCATTCAAGAGTTACCTCAATAAGAATGAAAATGAAGAAAATGAAGCAATTGGCTCA
GAAAATCAATCGACATCGCCAACAATAAATTGTCTTACCACAAATCTTTCAAACATAAAT
CGATTGATTAAAGATCGTTGCAATATTTTAAATTTGCAATGTAATACATTGCCTAGAATG
CTACCAAAAAGAGCAAGTACAAAATGGTATATAAAACAGCCCACTTGGCGACTTTGGGGT
GAGGAGCGCGACAAGGATGCCATTTATACAGTCTATTTGAAAAAGGTTCGATATCATCGT
CCGACACCAAGCGTAACAAATTCTAATGACAGTGACGACGAAATAAGTCATTTGGAGTGG
GAGACCGTGAGAGTTCGATTTGTTAAGGCTGCGACACTTGAACGACTTGTTGATGCTTTA
GTTACTGATGATGGCGAATTAGAGAGCACTTTTGTCAATGTTTTTTTAGCAACATATCGA
ACATTTACAAAAACACAAAAAGTTTTGGAACTTTTATTAGAAAAGTTTGAGAATCTCAGC
AATACTGATGCATATAAGAAAACTTTAATCTCAGTACTTCATTTATGGCTTGATGGCTAT
CCAGAAGATTGGGAGGATGAAAATTTACAAATTCTTTTAACTTTCACATCATCACGTTTA
CCAAATTCAAAAATTCATATGAAAGCTTTGGCAAAATTTAGTGAAAGATTAGACAAAT

>g4729.t3 Gene=g4729 Length=279
MFCPNNKTLQDITEKTKLLAQKCSQQIRVSLEQSSNQQVSSSFKSYLNKNENEENEAIGS
ENQSTSPTINCLTTNLSNINRLIKDRCNILNLQCNTLPRMLPKRASTKWYIKQPTWRLWG
EERDKDAIYTVYLKKVRYHRPTPSVTNSNDSDDEISHLEWETVRVRFVKAATLERLVDAL
VTDDGELESTFVNVFLATYRTFTKTQKVLELLLEKFENLSNTDAYKKTLISVLHLWLDGY
PEDWEDENLQILLTFTSSRLPNSKIHMKALAKFSERLDK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g4729.t3 CDD cd06224 REM 172 270 0.000
6 g4729.t3 Gene3D G3DSA:1.20.870.10 Son of sevenless (SoS) protein Chain: S domain 1 107 272 0.000
2 g4729.t3 PANTHER PTHR23113:SF312 RAL GUANINE NUCLEOTIDE DISSOCIATION STIMULATOR-LIKE, ISOFORM E 95 273 0.000
3 g4729.t3 PANTHER PTHR23113 GUANINE NUCLEOTIDE EXCHANGE FACTOR 95 273 0.000
1 g4729.t3 Pfam PF00618 RasGEF N-terminal motif 168 248 0.000
7 g4729.t3 ProSiteProfiles PS50212 Ras guanine-nucleotide exchange factors N-terminal domain profile. 164 279 25.136
5 g4729.t3 SMART SM00229 rasgefn_5 163 278 0.000
4 g4729.t3 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. There were no conditions that were differentially expressed