General information for g10402.t12
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.t12 | TTS | g10402.t12 | 9561301 | 9561301 |
| chr_1 | g10402 | g10402.t12 | isoform | g10402.t12 | 9561446 | 9565889 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon1 | 9561446 | 9561552 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS1 | 9561446 | 9561552 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon2 | 9561621 | 9561837 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS2 | 9561621 | 9561837 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon3 | 9561900 | 9562130 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS3 | 9561900 | 9562130 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon4 | 9562205 | 9562405 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS4 | 9562205 | 9562405 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon5 | 9562753 | 9562962 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS5 | 9562753 | 9562962 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon6 | 9563098 | 9563160 |
| chr_1 | g10402 | g10402.t12 | cds | g10402.t12.CDS6 | 9563098 | 9563154 |
| chr_1 | g10402 | g10402.t12 | exon | g10402.t12.exon7 | 9564967 | 9565889 |
| chr_1 | g10402 | g10402.t12 | TSS | g10402.t12 | 9565889 | 9565889 |
Sequences
>g10402.t12 Gene=g10402 Length=1952
AGTGAAAAAATTCAAAATGGCTGGTTAGATGGACAATGTTAACATCGTAAGAAAAGTGTG
AAATATTGTGAAATAAATTGTATTAGCCTCATTAAAAGTTTGATAAAACTCTAATTAAGA
TAGCCATAATTAAGTTTAAATTAAATTTAAACGCTAAGAGACTCAATGTAGCCAAAAAAT
TGGTCTGTGAAAAATCAAGTTCATGATTCGAAAGACGAAAAGAAAATTTTAGTGAAAGAT
CCAAATAGATAACGGTGGCGAGAGTAAAAATTGTGTTCAATATTAAATTTAAAAAAAGGA
AACAACTATTATTAAAAATTTAAATCCCATTATTTCAACTTAACAAGTGATTTTTGCAAA
GAGATATGATACATAGAATCAAAGAAGAAGGAGAGAAAATAACATAAAAATATTAATTAA
ATATTTTAAATCAAAGTATAGCCAAACCCAATAAAGGATTCTGTTCGCGATACTGCAAAA
TAATTTTAAATTAACTGAATGATTTTATGTGAAATAATTAAACAAGTGCAAAAACAGAAA
AAAAAGTTTTGTTGAAAAATATTGATTTCTCGATGTACTACACAAACCAGTAGCCGAAAG
ATTTTTTACTAGAGATAATTGCAAAAAGAAGTCTATATCTACACATATAACAAAAGTGAA
ATCGGCATTACTAAAGGAAAATTAAATAAAGAAAGAAGACGGAGGCGACAGTTAAAGAGC
AGATAAACCAAAATAGAAAAAAATAAATTCTAAATTAACTAGGCCATTTTTCCATCAAAT
AAATAACGAAAGAAACCTGAAATTCATACGTTAATTAAGAATAATAATAAATATATATTA
CAATCAATCAATCTTTGCATCTCAAGGAATATTAAACATAATATTAAAACTAAAATAATA
AATTCATATTAAAAAAATTCTCGGTGAAAATGAATGAATTGGACGCCTTAAGACAAGAAG
CTGAAACATTAAAAAATGCTATTCGTGATGCACGGAAAGCAGCATGCGACACCAGCCTCG
TGCAGGCAACGAATAATCTGGAACCAATTGGTCGCATTCAAATGCGTACCAGACGCACAT
TGCGTGGTCATTTAGCAAAAATTTATGCTATGCACTGGGGAAGTGATTCGAGAAATTTAG
TGTCAGCATCTCAAGATGGAAAATTGATTGTCTGGGATTCACATACAACAAACAAGGTAC
ACGCAATACCTCTACGTAGTTCTTGGGTTATGACATGCGCGTATGCACCATCCGGCAGTT
TTGTTGCATGTGGCGGTTTGGATAATATCTGTTCAATATATAGCTTAAAGACTAGAGAAG
GAAATGTGCGTGTATCACGTGAACTGCCTGGCCATACTGGCTACTTATCTTGTTGTCGAT
TCTTGGATGATAATCAGATAGTAACAAGTTCAGGAGATATGTCATGCGGATTATGGGATA
TAGAGACGGGCCAGCAATGTACATCGTTTTTGGGACATACTGGTGATGTAATGGCGCTGT
CATTGTCACCGCATTGTAGAGCGTTCGTTTCAGGAGCTTGCGATGCTTCAGCTAAATTAT
GGGACATTCGAGAAGGTCAATGCAAGCAAACCTTCCCTGGTCATGAAAGTGATATTAACG
CCGTAACATTCTTTCCCAATGGCTATGCATTTGCAACTGGTTCAGATGATGCCACTTGCC
GTCTTTTTGATATCCGTGCCGATCAGGAATTGGCAATGTATTCACATGATAACATCATTT
GTGGTATAACATCTGTTGCATTTTCAAAATCTGGACGTCTTTTATTGGCCGGCTATGATG
ATTTCAATTGCAATGTATGGGATACTATGAAAGCTGAACGAGCTGGTATCTTGGCCGGCC
ACGATAACCGCGTATCATGTCTAGGAGTTACAGAAAACGGCATGGCTGTAGCAACAGGGT
CGTGGGATTCATTTTTACGTGTATGGAACTAA
>g10402.t12 Gene=g10402 Length=340
MNELDALRQEAETLKNAIRDARKAACDTSLVQATNNLEPIGRIQMRTRRTLRGHLAKIYA
MHWGSDSRNLVSASQDGKLIVWDSHTTNKVHAIPLRSSWVMTCAYAPSGSFVACGGLDNI
CSIYSLKTREGNVRVSRELPGHTGYLSCCRFLDDNQIVTSSGDMSCGLWDIETGQQCTSF
LGHTGDVMALSLSPHCRAFVSGACDASAKLWDIREGQCKQTFPGHESDINAVTFFPNGYA
FATGSDDATCRLFDIRADQELAMYSHDNIICGITSVAFSKSGRLLLAGYDDFNCNVWDTM
KAERAGILAGHDNRVSCLGVTENGMAVATGSWDSFLRVWN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g10402.t12 | CDD | cd00200 | WD40 | 48 | 340 | 4.19398E-91 |
| 18 | g10402.t12 | Coils | Coil | Coil | 4 | 24 | - |
| 17 | g10402.t12 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 340 | 7.0E-143 |
| 7 | g10402.t12 | PANTHER | PTHR19850:SF28 | GUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-4 | 1 | 340 | 1.2E-208 |
| 8 | g10402.t12 | PANTHER | PTHR19850 | GUANINE NUCLEOTIDE-BINDING PROTEIN BETA G PROTEIN BETA | 1 | 340 | 1.2E-208 |
| 19 | g10402.t12 | PIRSF | PIRSF002394 | GNBP_B | 1 | 340 | 8.8E-165 |
| 12 | g10402.t12 | PRINTS | PR00319 | Beta G protein (transducin) signature | 51 | 67 | 1.5E-32 |
| 10 | g10402.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 70 | 84 | 7.9E-7 |
| 15 | g10402.t12 | PRINTS | PR00319 | Beta G protein (transducin) signature | 70 | 84 | 1.5E-32 |
| 14 | g10402.t12 | PRINTS | PR00319 | Beta G protein (transducin) signature | 89 | 104 | 1.5E-32 |
| 13 | g10402.t12 | PRINTS | PR00319 | Beta G protein (transducin) signature | 107 | 124 | 1.5E-32 |
| 11 | g10402.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 157 | 171 | 7.9E-7 |
| 9 | g10402.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 199 | 213 | 7.9E-7 |
| 5 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 48 | 83 | 1.7E-4 |
| 4 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 136 | 170 | 0.0093 |
| 1 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 176 | 212 | 0.025 |
| 3 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 216 | 254 | 1.8E-7 |
| 2 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 265 | 298 | 8.7E-5 |
| 6 | g10402.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 307 | 340 | 0.002 |
| 29 | g10402.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 70 | 84 | - |
| 30 | g10402.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 157 | 171 | - |
| 28 | g10402.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 285 | 299 | - |
| 31 | g10402.t12 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 51 | 340 | 56.052 |
| 33 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 51 | 92 | 13.783 |
| 37 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 139 | 179 | 9.706 |
| 32 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 180 | 221 | 14.184 |
| 36 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 222 | 263 | 12.848 |
| 34 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 273 | 307 | 8.771 |
| 35 | g10402.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 308 | 340 | 14.452 |
| 23 | g10402.t12 | SMART | SM00320 | WD40_4 | 44 | 83 | 5.5E-7 |
| 22 | g10402.t12 | SMART | SM00320 | WD40_4 | 86 | 125 | 0.012 |
| 27 | g10402.t12 | SMART | SM00320 | WD40_4 | 132 | 170 | 8.2E-6 |
| 21 | g10402.t12 | SMART | SM00320 | WD40_4 | 173 | 212 | 3.5E-6 |
| 25 | g10402.t12 | SMART | SM00320 | WD40_4 | 215 | 254 | 1.7E-9 |
| 24 | g10402.t12 | SMART | SM00320 | WD40_4 | 257 | 298 | 9.7E-4 |
| 26 | g10402.t12 | SMART | SM00320 | WD40_4 | 301 | 340 | 1.1E-4 |
| 16 | g10402.t12 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 7 | 340 | 7.02E-79 |
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 transcript has been annotated with K04536 (guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1)
Pathway
- This transcript belongs to the following pathways
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.
