General information for g6899.t42
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.t42 | TSS | g6899.t42 | 19756988 | 19756988 |
| chr_2 | g6899 | g6899.t42 | isoform | g6899.t42 | 19757065 | 19758475 |
| chr_2 | g6899 | g6899.t42 | exon | g6899.t42.exon1 | 19757065 | 19757173 |
| chr_2 | g6899 | g6899.t42 | exon | g6899.t42.exon2 | 19757245 | 19757398 |
| chr_2 | g6899 | g6899.t42 | cds | g6899.t42.CDS1 | 19757381 | 19757398 |
| chr_2 | g6899 | g6899.t42 | exon | g6899.t42.exon3 | 19757837 | 19758475 |
| chr_2 | g6899 | g6899.t42 | cds | g6899.t42.CDS2 | 19757837 | 19758475 |
| chr_2 | g6899 | g6899.t42 | TTS | g6899.t42 | 19758558 | 19758558 |
Sequences
>g6899.t42 Gene=g6899 Length=902
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGGATGTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTC
AAATCGTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAGCCGAGTGCA
AATACACCATTCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAA
ATCAAGTAAATCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACT
TGGCAAACTGCAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCA
CTGTTTCACCTGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGT
GGGATTTGAATGACGGCAAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCT
TATGCTTCTCACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTT
GGGATTTGGCATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATT
CATCAAAGGCTGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTT
TGTTTGCCGGCTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTT
AA
>g6899.t42 Gene=g6899 Length=218
MGQDFEDVLSVAFSADNRQIVSGSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQ
VNPIIVSAGWDKTVKVWNLANCKLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWD
LNDGKHLHTLEHNDIINALCFSPNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTNDSS
KADPPQCLSLAWSTDGQTLFAGYSDNKIRVWQVSVTAR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6899.t42 | CDD | cd00200 | WD40 | 6 | 212 | 2.22741E-60 |
| 11 | g6899.t42 | Gene3D | G3DSA:2.130.10.10 | - | 3 | 218 | 1.8E-86 |
| 6 | g6899.t42 | PANTHER | PTHR19868 | RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 | 6 | 215 | 1.7E-103 |
| 8 | g6899.t42 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 20 | 34 | 1.2E-7 |
| 9 | g6899.t42 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 65 | 79 | 1.2E-7 |
| 7 | g6899.t42 | PRINTS | PR00320 | G protein beta WD-40 repeat signature | 107 | 121 | 1.2E-7 |
| 1 | g6899.t42 | Pfam | PF00400 | WD domain, G-beta repeat | 7 | 33 | 7.7E-6 |
| 5 | g6899.t42 | Pfam | PF00400 | WD domain, G-beta repeat | 40 | 78 | 1.1E-6 |
| 3 | g6899.t42 | Pfam | PF00400 | WD domain, G-beta repeat | 87 | 120 | 8.4E-4 |
| 2 | g6899.t42 | Pfam | PF00400 | WD domain, G-beta repeat | 124 | 160 | 1.5E-5 |
| 4 | g6899.t42 | Pfam | PF00400 | WD domain, G-beta repeat | 189 | 211 | 0.0016 |
| 14 | g6899.t42 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 20 | 34 | - |
| 15 | g6899.t42 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 65 | 79 | - |
| 13 | g6899.t42 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 107 | 121 | - |
| 21 | g6899.t42 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 218 | 33.669 |
| 24 | g6899.t42 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1 | 33 | 12.079 |
| 22 | g6899.t42 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 44 | 79 | 13.316 |
| 25 | g6899.t42 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 88 | 129 | 12.881 |
| 23 | g6899.t42 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 189 | 218 | 10.375 |
| 17 | g6899.t42 | SMART | SM00320 | WD40_4 | 2 | 33 | 0.13 |
| 19 | g6899.t42 | SMART | SM00320 | WD40_4 | 35 | 78 | 2.3E-9 |
| 16 | g6899.t42 | SMART | SM00320 | WD40_4 | 81 | 120 | 7.3E-4 |
| 18 | g6899.t42 | SMART | SM00320 | WD40_4 | 123 | 160 | 2.1E-5 |
| 20 | g6899.t42 | SMART | SM00320 | WD40_4 | 177 | 212 | 0.25 |
| 10 | g6899.t42 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 7 | 214 | 8.47E-49 |
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.
