Gene loci information

Transcript annotation

  • This transcript has been annotated as Guanine nucleotide-binding protein subunit beta-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_1 g10402 g10402.t4 TTS g10402.t4 9560173 9560173
chr_1 g10402 g10402.t4 isoform g10402.t4 9561017 9562117
chr_1 g10402 g10402.t4 exon g10402.t4.exon1 9561017 9561552
chr_1 g10402 g10402.t4 cds g10402.t4.CDS1 9561446 9561552
chr_1 g10402 g10402.t4 exon g10402.t4.exon2 9561621 9561837
chr_1 g10402 g10402.t4 cds g10402.t4.CDS2 9561621 9561837
chr_1 g10402 g10402.t4 exon g10402.t4.exon3 9561900 9562117
chr_1 g10402 g10402.t4 cds g10402.t4.CDS3 9561900 9562109
chr_1 g10402 g10402.t4 TSS g10402.t4 NA NA

Sequences

>g10402.t4 Gene=g10402 Length=971
CAGGAGATATGTCATGCGGATTATGGGATATAGAGACGGGCCAGCAATGTACATCGTTTT
TGGGACATACTGGTGATGTAATGGCGCTGTCATTGTCACCGCATTGTAGAGCGTTCGTTT
CAGGAGCTTGCGATGCTTCAGCTAAATTATGGGACATTCGAGAAGGTCAATGCAAGCAAA
CCTTCCCTGGTCATGAAAGTGATATTAACGCCGTAACATTCTTTCCCAATGGCTATGCAT
TTGCAACTGGTTCAGATGATGCCACTTGCCGTCTTTTTGATATCCGTGCCGATCAGGAAT
TGGCAATGTATTCACATGATAACATCATTTGTGGTATAACATCTGTTGCATTTTCAAAAT
CTGGACGTCTTTTATTGGCCGGCTATGATGATTTCAATTGCAATGTATGGGATACTATGA
AAGCTGAACGAGCTGGTATCTTGGCCGGCCACGATAACCGCGTATCATGTCTAGGAGTTA
CAGAAAACGGCATGGCTGTAGCAACAGGGTCGTGGGATTCATTTTTACGTGTATGGAACT
AATTTAATTGCAACAAAAAATCATCTTTATCTCGCGCCCGTTACTCTCAAAATTATCTAC
CTTTTTATTTTCCTTATTACTCTGATAAGGAAGCTAAGAGAATGCACATAAAACACATAC
AATACATAAAACATAAAAAAGAAACAAGTAACAAATTGAAGAGAAAAAAATATCAAAATA
TTGAAAGCAAAGAAAGATATGAAATACGACTTCTTCTATCTAGTAATAGTGCGATCAGAG
CGAAAATGAATATTGTCATAAATTGAAGTTGAAATTAAAGAGAAGTTGATGATGGTAAAT
GCCAGTCTACTACATACTTTTACTACTTATTCAAGTAACTAACAAAAGAAAGAAGAAAAC
AGTATATATTACAAGACCCAAAAAATTGATTTTGACAATTTTTTTCTTTCATACAAAGTA
GAATGTGAAAA

>g10402.t4 Gene=g10402 Length=177
MSCGLWDIETGQQCTSFLGHTGDVMALSLSPHCRAFVSGACDASAKLWDIREGQCKQTFP
GHESDINAVTFFPNGYAFATGSDDATCRLFDIRADQELAMYSHDNIICGITSVAFSKSGR
LLLAGYDDFNCNVWDTMKAERAGILAGHDNRVSCLGVTENGMAVATGSWDSFLRVWN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10402.t4 CDD cd00200 WD40 2 177 6.5002E-55
11 g10402.t4 Gene3D G3DSA:2.130.10.10 - 1 177 1.6E-75
5 g10402.t4 PANTHER PTHR19850:SF28 GUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-4 2 177 3.6E-105
6 g10402.t4 PANTHER PTHR19850 GUANINE NUCLEOTIDE-BINDING PROTEIN BETA G PROTEIN BETA 2 177 3.6E-105
8 g10402.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 36 50 2.8E-5
7 g10402.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 78 92 2.8E-5
9 g10402.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 164 177 2.8E-5
1 g10402.t4 Pfam PF00400 WD domain, G-beta repeat 13 49 0.0091
4 g10402.t4 Pfam PF00400 WD domain, G-beta repeat 53 91 6.6E-8
3 g10402.t4 Pfam PF00400 WD domain, G-beta repeat 102 135 3.2E-5
2 g10402.t4 Pfam PF00400 WD domain, G-beta repeat 144 177 7.6E-4
13 g10402.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 122 136 -
18 g10402.t4 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 1 177 40.234
21 g10402.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 17 58 14.184
20 g10402.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 59 100 12.848
19 g10402.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 110 144 8.771
22 g10402.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 145 177 14.452
16 g10402.t4 SMART SM00320 WD40_4 10 49 3.5E-6
17 g10402.t4 SMART SM00320 WD40_4 52 91 1.7E-9
14 g10402.t4 SMART SM00320 WD40_4 94 135 9.7E-4
15 g10402.t4 SMART SM00320 WD40_4 138 177 1.1E-4
10 g10402.t4 SUPERFAMILY SSF50978 WD40 repeat-like 3 177 1.59E-47

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:0007165 signal transduction BP
GO:0005515 protein binding 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.

Raw TPM values