General information for g6899.t23
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.t23 | TSS | g6899.t23 | 19756988 | 19756988 |
| chr_2 | g6899 | g6899.t23 | isoform | g6899.t23 | 19757065 | 19758475 |
| chr_2 | g6899 | g6899.t23 | exon | g6899.t23.exon1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t23 | cds | g6899.t23.CDS1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t23 | exon | g6899.t23.exon2 | 19757245 | 19757334 |
| chr_2 | g6899 | g6899.t23 | cds | g6899.t23.CDS2 | 19757245 | 19757334 |
| chr_2 | g6899 | g6899.t23 | exon | g6899.t23.exon3 | 19757850 | 19758475 |
| chr_2 | g6899 | g6899.t23 | cds | g6899.t23.CDS3 | 19757850 | 19758475 |
| chr_2 | g6899 | g6899.t23 | TTS | g6899.t23 | 19758558 | 19758558 |
Sequences
>g6899.t23 Gene=g6899 Length=825
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCATTGCTTTTAGCGCTGACAATCGTCAAATCGTTTCTGGCTCA
CGCGATAAGACTATTAAATTGTGGAATACATTAGCCGAGTGCAAATACACCATTCAAGAA
GATGGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAAGTAAATCCAATC
ATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTGCAAATTG
AAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACCTGATGGT
TCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAATGACGGC
AAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTCACCAAAC
CGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGCATGCAAG
AAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGCTGATCCA
CCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGGCTACAGC
GATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA
>g6899.t23 Gene=g6899 Length=274
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFIIAFSADNRQIVSGSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQVNPI
IVSAGWDKTVKVWNLANCKLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWDLNDG
KHLHTLEHNDIINALCFSPNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTNDSSKADP
PQCLSLAWSTDGQTLFAGYSDNKIRVWQVSVTAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6899.t23 | CDD | cd00200 | WD40 | 7 | 268 | 7.78863E-69 |
| 13 | g6899.t23 | Gene3D | G3DSA:2.130.10.10 | - | 8 | 274 | 2.8E-97 |
| 8 | g6899.t23 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 1 | 66 | 1.4E-123 |
| 7 | g6899.t23 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 67 | 271 | 1.4E-123 |
| 9 | g6899.t23 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 31 | 45 | 8.8E-8 |
| 11 | g6899.t23 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 76 | 90 | 8.8E-8 |
| 10 | g6899.t23 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 121 | 135 | 8.8E-8 |
| 5 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 6 | 43 | 0.0011 |
| 6 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 55 | 89 | 3.9E-5 |
| 3 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 96 | 134 | 1.5E-6 |
| 1 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 143 | 176 | 0.0012 |
| 2 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 180 | 216 | 2.1E-5 |
| 4 | g6899.t23 | Pfam | PF00400 | WD domain, G-beta repeat | 245 | 267 | 0.0022 |
| 16 | g6899.t23 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 76 | 90 | - |
| 15 | g6899.t23 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 121 | 135 | - |
| 17 | g6899.t23 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 163 | 177 | - |
| 24 | g6899.t23 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 11 | 274 | 37.729 |
| 26 | g6899.t23 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 11 | 45 | 10.742 |
| 25 | g6899.t23 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 67 | 89 | 10.876 |
| 28 | g6899.t23 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 100 | 135 | 13.316 |
| 27 | g6899.t23 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 144 | 185 | 12.881 |
| 29 | g6899.t23 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 245 | 274 | 10.375 |
| 18 | g6899.t23 | SMART | SM00320 | WD40_4 | 4 | 44 | 7.1E-7 |
| 19 | g6899.t23 | SMART | SM00320 | WD40_4 | 52 | 89 | 1.1E-4 |
| 23 | g6899.t23 | SMART | SM00320 | WD40_4 | 91 | 134 | 2.3E-9 |
| 20 | g6899.t23 | SMART | SM00320 | WD40_4 | 137 | 176 | 7.3E-4 |
| 22 | g6899.t23 | SMART | SM00320 | WD40_4 | 179 | 216 | 2.1E-5 |
| 21 | g6899.t23 | SMART | SM00320 | WD40_4 | 233 | 268 | 0.25 |
| 12 | g6899.t23 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 4 | 267 | 2.83E-58 |
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.
