General information for g6899.t39
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Guanine nucleotide-binding protein subunit beta-like protein.
Parent gene
- The parent gene g6899 is located on chr_2: 19757258..19758555 (+ 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 | g6899 | g6899.t39 | TSS | g6899.t39 | 19756988 | 19756988 |
| chr_2 | g6899 | g6899.t39 | isoform | g6899.t39 | 19757065 | 19758475 |
| chr_2 | g6899 | g6899.t39 | exon | g6899.t39.exon1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t39 | cds | g6899.t39.CDS1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t39 | exon | g6899.t39.exon2 | 19757245 | 19757398 |
| chr_2 | g6899 | g6899.t39 | cds | g6899.t39.CDS2 | 19757245 | 19757398 |
| chr_2 | g6899 | g6899.t39 | exon | g6899.t39.exon3 | 19757458 | 19757512 |
| chr_2 | g6899 | g6899.t39 | cds | g6899.t39.CDS3 | 19757458 | 19757512 |
| chr_2 | g6899 | g6899.t39 | exon | g6899.t39.exon4 | 19757837 | 19757928 |
| chr_2 | g6899 | g6899.t39 | cds | g6899.t39.CDS4 | 19757837 | 19757928 |
| chr_2 | g6899 | g6899.t39 | exon | g6899.t39.exon5 | 19758000 | 19758475 |
| chr_2 | g6899 | g6899.t39 | cds | g6899.t39.CDS5 | 19758000 | 19758033 |
| chr_2 | g6899 | g6899.t39 | TTS | g6899.t39 | 19758558 | 19758558 |
Sequences
>g6899.t39 Gene=g6899 Length=886
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGT
TTTGAGGATCACACAAAGGATGTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTCAAATC
GTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAGCCGATAAATCCAAT
CATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTGCAAATT
GAAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACCTGATGG
TTCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAATGACGG
CAAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTCACCAAA
CCGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGCATGCAA
GAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGCTGATCC
ACCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGGCTACAG
CGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA
>g6899.t39 Gene=g6899 Length=147
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFISDVVLSSDGNYALSGSWDKTLRLWDLAAGKSTRRFEDHTKDVLSVAFSADNRQI
VSGSRDKTIKLWNTLADKSNHCFCWLG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6899.t39 | Gene3D | G3DSA:2.130.10.10 | - | 8 | 144 | 9.4E-54 |
| 4 | g6899.t39 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 1 | 137 | 5.4E-64 |
| 5 | g6899.t39 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 31 | 45 | 2.3E-8 |
| 6 | g6899.t39 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 78 | 92 | 2.3E-8 |
| 7 | g6899.t39 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 120 | 134 | 2.3E-8 |
| 1 | g6899.t39 | Pfam | PF00400 | WD domain, G-beta repeat | 6 | 43 | 3.9E-4 |
| 2 | g6899.t39 | Pfam | PF00400 | WD domain, G-beta repeat | 55 | 91 | 4.5E-8 |
| 3 | g6899.t39 | Pfam | PF00400 | WD domain, G-beta repeat | 96 | 133 | 2.4E-8 |
| 10 | g6899.t39 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 78 | 92 | - |
| 11 | g6899.t39 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 120 | 134 | - |
| 15 | g6899.t39 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 11 | 142 | 30.4 |
| 16 | g6899.t39 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 11 | 45 | 10.742 |
| 17 | g6899.t39 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 59 | 100 | 15.287 |
| 18 | g6899.t39 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 101 | 133 | 15.22 |
| 13 | g6899.t39 | SMART | SM00320 | WD40_4 | 4 | 44 | 7.1E-7 |
| 14 | g6899.t39 | SMART | SM00320 | WD40_4 | 52 | 91 | 3.7E-7 |
| 12 | g6899.t39 | SMART | SM00320 | WD40_4 | 94 | 133 | 4.9E-10 |
| 8 | g6899.t39 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 4 | 136 | 2.88E-37 |
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: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.
