General information for g10402.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Guanine nucleotide-binding protein subunit beta-1.
Parent gene
- The parent gene g10402 is located on chr_1: 9567301..9568734 (- 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 | g10402 | g10402.t9 | TTS | g10402.t9 | 9561301 | 9561301 |
| chr_1 | g10402 | g10402.t9 | isoform | g10402.t9 | 9561446 | 9562762 |
| chr_1 | g10402 | g10402.t9 | exon | g10402.t9.exon1 | 9561446 | 9561552 |
| chr_1 | g10402 | g10402.t9 | cds | g10402.t9.CDS1 | 9561446 | 9561552 |
| chr_1 | g10402 | g10402.t9 | exon | g10402.t9.exon2 | 9561621 | 9561837 |
| chr_1 | g10402 | g10402.t9 | cds | g10402.t9.CDS2 | 9561621 | 9561837 |
| chr_1 | g10402 | g10402.t9 | exon | g10402.t9.exon3 | 9561900 | 9562130 |
| chr_1 | g10402 | g10402.t9 | cds | g10402.t9.CDS3 | 9561900 | 9562130 |
| chr_1 | g10402 | g10402.t9 | exon | g10402.t9.exon4 | 9562205 | 9562405 |
| chr_1 | g10402 | g10402.t9 | cds | g10402.t9.CDS4 | 9562205 | 9562372 |
| chr_1 | g10402 | g10402.t9 | exon | g10402.t9.exon5 | 9562753 | 9562762 |
| chr_1 | g10402 | g10402.t9 | TSS | g10402.t9 | NA | NA |
Sequences
>g10402.t9 Gene=g10402 Length=766
AACAAACAAGGTACACGCAATACCTCTACGTAGTTCTTGGGTTATGACATGCGCGTATGC
ACCATCCGGCAGTTTTGTTGCATGTGGCGGTTTGGATAATATCTGTTCAATATATAGCTT
AAAGACTAGAGAAGGAAATGTGCGTGTATCACGTGAACTGCCTGGCCATACTGGCTACTT
ATCTTGTTGTCGATTCTTGGATGATAATCAGATAGTAACAAGTTCAGGAGATATGTCATG
CGGATTATGGGATATAGAGACGGGCCAGCAATGTACATCGTTTTTGGGACATACTGGTGA
TGTAATGGCGCTGTCATTGTCACCGCATTGTAGAGCGTTCGTTTCAGGAGCTTGCGATGC
TTCAGCTAAATTATGGGACATTCGAGAAGGTCAATGCAAGCAAACCTTCCCTGGTCATGA
AAGTGATATTAACGCCGTAACATTCTTTCCCAATGGCTATGCATTTGCAACTGGTTCAGA
TGATGCCACTTGCCGTCTTTTTGATATCCGTGCCGATCAGGAATTGGCAATGTATTCACA
TGATAACATCATTTGTGGTATAACATCTGTTGCATTTTCAAAATCTGGACGTCTTTTATT
GGCCGGCTATGATGATTTCAATTGCAATGTATGGGATACTATGAAAGCTGAACGAGCTGG
TATCTTGGCCGGCCACGATAACCGCGTATCATGTCTAGGAGTTACAGAAAACGGCATGGC
TGTAGCAACAGGGTCGTGGGATTCATTTTTACGTGTATGGAACTAA
>g10402.t9 Gene=g10402 Length=240
MTCAYAPSGSFVACGGLDNICSIYSLKTREGNVRVSRELPGHTGYLSCCRFLDDNQIVTS
SGDMSCGLWDIETGQQCTSFLGHTGDVMALSLSPHCRAFVSGACDASAKLWDIREGQCKQ
TFPGHESDINAVTFFPNGYAFATGSDDATCRLFDIRADQELAMYSHDNIICGITSVAFSK
SGRLLLAGYDDFNCNVWDTMKAERAGILAGHDNRVSCLGVTENGMAVATGSWDSFLRVWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g10402.t9 | CDD | cd00200 | WD40 | 2 | 240 | 3.58204E-73 |
| 12 | g10402.t9 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 240 | 1.7E-106 |
| 6 | g10402.t9 | PANTHER | PTHR19850:SF28 | GUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-4 | 1 | 240 | 4.0E-151 |
| 7 | g10402.t9 | PANTHER | PTHR19850 | GUANINE NUCLEOTIDE-BINDING PROTEIN BETA G PROTEIN BETA | 1 | 240 | 4.0E-151 |
| 8 | g10402.t9 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 57 | 71 | 3.3E-5 |
| 10 | g10402.t9 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 99 | 113 | 3.3E-5 |
| 9 | g10402.t9 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 227 | 240 | 3.3E-5 |
| 1 | g10402.t9 | Pfam | PF00400 | WD domain, G-beta repeat | 36 | 70 | 0.0056 |
| 3 | g10402.t9 | Pfam | PF00400 | WD domain, G-beta repeat | 76 | 112 | 0.015 |
| 5 | g10402.t9 | Pfam | PF00400 | WD domain, G-beta repeat | 116 | 154 | 1.1E-7 |
| 4 | g10402.t9 | Pfam | PF00400 | WD domain, G-beta repeat | 165 | 198 | 5.3E-5 |
| 2 | g10402.t9 | Pfam | PF00400 | WD domain, G-beta repeat | 207 | 240 | 0.0012 |
| 14 | g10402.t9 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 57 | 71 | - |
| 15 | g10402.t9 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 185 | 199 | - |
| 21 | g10402.t9 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 240 | 46.244 |
| 24 | g10402.t9 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 39 | 79 | 9.706 |
| 23 | g10402.t9 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 80 | 121 | 14.184 |
| 22 | g10402.t9 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 122 | 163 | 12.848 |
| 25 | g10402.t9 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 173 | 207 | 8.771 |
| 26 | g10402.t9 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 208 | 240 | 14.452 |
| 19 | g10402.t9 | SMART | SM00320 | WD40_4 | 32 | 70 | 8.2E-6 |
| 17 | g10402.t9 | SMART | SM00320 | WD40_4 | 73 | 112 | 3.5E-6 |
| 16 | g10402.t9 | SMART | SM00320 | WD40_4 | 115 | 154 | 1.7E-9 |
| 20 | g10402.t9 | SMART | SM00320 | WD40_4 | 157 | 198 | 9.7E-4 |
| 18 | g10402.t9 | SMART | SM00320 | WD40_4 | 201 | 240 | 1.1E-4 |
| 11 | g10402.t9 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 2 | 240 | 2.97E-61 |
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.
