General information for g6899.t43
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.t43 | TSS | g6899.t43 | 19756988 | 19756988 |
| chr_2 | g6899 | g6899.t43 | isoform | g6899.t43 | 19757065 | 19758475 |
| chr_2 | g6899 | g6899.t43 | exon | g6899.t43.exon1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t43 | exon | g6899.t43.exon2 | 19757245 | 19757398 |
| chr_2 | g6899 | g6899.t43 | cds | g6899.t43.CDS1 | 19757381 | 19757398 |
| chr_2 | g6899 | g6899.t43 | exon | g6899.t43.exon3 | 19757458 | 19757489 |
| chr_2 | g6899 | g6899.t43 | cds | g6899.t43.CDS2 | 19757458 | 19757489 |
| chr_2 | g6899 | g6899.t43 | exon | g6899.t43.exon4 | 19757860 | 19758475 |
| chr_2 | g6899 | g6899.t43 | cds | g6899.t43.CDS3 | 19757860 | 19758475 |
| chr_2 | g6899 | g6899.t43 | TTS | g6899.t43 | 19758558 | 19758558 |
Sequences
>g6899.t43 Gene=g6899 Length=911
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCCGCTG
ACAATCGTCAAATCGTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAG
CCGAGTGCAAATACACCATTCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGTT
TCTCACCAAATCAAGTAAATCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGG
TCTGGAACTTGGCAAACTGCAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTGA
ATACTGTCACTGTTTCACCTGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAGG
CTTTGTTGTGGGATTTGAATGACGGCAAGCACTTGCACACACTTGAACATAACGACATCA
TCAATGCCTTATGCTTCTCACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCAA
TCAAGATTTGGGATTTGGCATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGA
CAAACGATTCATCAAAGGCTGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGATG
GACAAACTTTGTTTGCCGGCTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTA
CTGCTCGTTAA
>g6899.t43 Gene=g6899 Length=221
MGQDFEIVGFGSRKINSADNRQIVSGSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFS
PNQVNPIIVSAGWDKTVKVWNLANCKLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKAL
LWDLNDGKHLHTLEHNDIINALCFSPNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTN
DSSKADPPQCLSLAWSTDGQTLFAGYSDNKIRVWQVSVTAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6899.t43 | CDD | cd00200 | WD40 | 17 | 215 | 1.44307E-56 |
| 11 | g6899.t43 | Gene3D | G3DSA:2.130.10.10 | - | 14 | 221 | 6.9E-82 |
| 6 | g6899.t43 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 17 | 218 | 3.6E-98 |
| 8 | g6899.t43 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 23 | 37 | 1.2E-7 |
| 9 | g6899.t43 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 68 | 82 | 1.2E-7 |
| 7 | g6899.t43 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 110 | 124 | 1.2E-7 |
| 2 | g6899.t43 | Pfam | PF00400 | WD domain, G-beta repeat | 16 | 36 | 0.0038 |
| 5 | g6899.t43 | Pfam | PF00400 | WD domain, G-beta repeat | 43 | 81 | 1.1E-6 |
| 1 | g6899.t43 | Pfam | PF00400 | WD domain, G-beta repeat | 90 | 123 | 8.6E-4 |
| 4 | g6899.t43 | Pfam | PF00400 | WD domain, G-beta repeat | 127 | 163 | 1.5E-5 |
| 3 | g6899.t43 | Pfam | PF00400 | WD domain, G-beta repeat | 192 | 214 | 0.0016 |
| 14 | g6899.t43 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 23 | 37 | - |
| 15 | g6899.t43 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 68 | 82 | - |
| 13 | g6899.t43 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 110 | 124 | - |
| 21 | g6899.t43 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 17 | 221 | 30.136 |
| 24 | g6899.t43 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 17 | 36 | 9.272 |
| 25 | g6899.t43 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 47 | 82 | 13.316 |
| 22 | g6899.t43 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 91 | 132 | 12.881 |
| 23 | g6899.t43 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 192 | 221 | 10.375 |
| 18 | g6899.t43 | SMART | SM00320 | WD40_4 | 2 | 36 | 25.0 |
| 20 | g6899.t43 | SMART | SM00320 | WD40_4 | 38 | 81 | 2.3E-9 |
| 19 | g6899.t43 | SMART | SM00320 | WD40_4 | 84 | 123 | 7.3E-4 |
| 16 | g6899.t43 | SMART | SM00320 | WD40_4 | 126 | 163 | 2.1E-5 |
| 17 | g6899.t43 | SMART | SM00320 | WD40_4 | 180 | 215 | 0.25 |
| 10 | g6899.t43 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 17 | 217 | 6.28E-46 |
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. There were no conditions that were differentially expressed