General information for g6899.t12
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.t12 | TSS | g6899.t12 | 19756988 | 19756988 |
| chr_2 | g6899 | g6899.t12 | isoform | g6899.t12 | 19757065 | 19758475 |
| chr_2 | g6899 | g6899.t12 | exon | g6899.t12.exon1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t12 | exon | g6899.t12.exon2 | 19757245 | 19757398 |
| chr_2 | g6899 | g6899.t12 | exon | g6899.t12.exon3 | 19757458 | 19757550 |
| chr_2 | g6899 | g6899.t12 | cds | g6899.t12.CDS1 | 19757543 | 19757550 |
| chr_2 | g6899 | g6899.t12 | exon | g6899.t12.exon4 | 19757860 | 19758475 |
| chr_2 | g6899 | g6899.t12 | cds | g6899.t12.CDS2 | 19757860 | 19758475 |
| chr_2 | g6899 | g6899.t12 | TTS | g6899.t12 | 19758558 | 19758558 |
Sequences
>g6899.t12 Gene=g6899 Length=972
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGT
TTTGAGGATCACACAAAGGTCTGAAATTTGTTTTCCCAATTTTATTTTATGGGGCTCGCT
GACAATCGTCAAATCGTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTA
GCCGAGTGCAAATACACCATTCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGT
TTCTCACCAAATCAAGTAAATCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAG
GTCTGGAACTTGGCAAACTGCAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTG
AATACTGTCACTGTTTCACCTGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAG
GCTTTGTTGTGGGATTTGAATGACGGCAAGCACTTGCACACACTTGAACATAACGACATC
ATCAATGCCTTATGCTTCTCACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCA
ATCAAGATTTGGGATTTGGCATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCG
ACAAACGATTCATCAAAGGCTGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGAT
GGACAAACTTTGTTTGCCGGCTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTT
ACTGCTCGTTAA
>g6899.t12 Gene=g6899 Length=207
MGLADNRQIVSGSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWD
KTVKVWNLANCKLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLE
HNDIINALCFSPNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLA
WSTDGQTLFAGYSDNKIRVWQVSVTAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6899.t12 | CDD | cd00200 | WD40 | 3 | 201 | 3.71234E-56 |
| 11 | g6899.t12 | Gene3D | G3DSA:2.130.10.10 | - | 3 | 207 | 1.2E-81 |
| 6 | g6899.t12 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 4 | 204 | 7.8E-98 |
| 8 | g6899.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 9 | 23 | 1.0E-7 |
| 7 | g6899.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 54 | 68 | 1.0E-7 |
| 9 | g6899.t12 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 96 | 110 | 1.0E-7 |
| 5 | g6899.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 5 | 22 | 0.02 |
| 3 | g6899.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 29 | 67 | 9.8E-7 |
| 2 | g6899.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 76 | 109 | 7.7E-4 |
| 1 | g6899.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 113 | 149 | 1.4E-5 |
| 4 | g6899.t12 | Pfam | PF00400 | WD domain, G-beta repeat | 178 | 200 | 0.0015 |
| 14 | g6899.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 9 | 23 | - |
| 13 | g6899.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 54 | 68 | - |
| 15 | g6899.t12 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 96 | 110 | - |
| 20 | g6899.t12 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 207 | 31.138 |
| 24 | g6899.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 5 | 22 | 9.172 |
| 23 | g6899.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 33 | 68 | 13.316 |
| 22 | g6899.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 77 | 118 | 12.881 |
| 21 | g6899.t12 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 178 | 207 | 10.375 |
| 17 | g6899.t12 | SMART | SM00320 | WD40_4 | 24 | 67 | 2.3E-9 |
| 19 | g6899.t12 | SMART | SM00320 | WD40_4 | 70 | 109 | 7.3E-4 |
| 18 | g6899.t12 | SMART | SM00320 | WD40_4 | 112 | 149 | 2.1E-5 |
| 16 | g6899.t12 | SMART | SM00320 | WD40_4 | 166 | 201 | 0.25 |
| 10 | g6899.t12 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 5 | 203 | 1.91E-45 |
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.
