Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Guanine nucleotide-binding protein subunit beta-like protein.

Parent gene

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.t20 TSS g6899.t20 19756988 19756988
chr_2 g6899 g6899.t20 isoform g6899.t20 19757065 19758475
chr_2 g6899 g6899.t20 exon g6899.t20.exon1 19757065 19757173
chr_2 g6899 g6899.t20 cds g6899.t20.CDS1 19757065 19757173
chr_2 g6899 g6899.t20 exon g6899.t20.exon2 19757245 19757398
chr_2 g6899 g6899.t20 cds g6899.t20.CDS2 19757245 19757398
chr_2 g6899 g6899.t20 exon g6899.t20.exon3 19757458 19757507
chr_2 g6899 g6899.t20 cds g6899.t20.CDS3 19757458 19757507
chr_2 g6899 g6899.t20 exon g6899.t20.exon4 19757837 19758475
chr_2 g6899 g6899.t20 cds g6899.t20.CDS4 19757837 19757859
chr_2 g6899 g6899.t20 TTS g6899.t20 19758558 19758558

Sequences

>g6899.t20 Gene=g6899 Length=952
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGT
TTTGAGGATCACAGATGTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTCAAATCGTTTC
TGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAGCCGAGTGCAAATACACCAT
TCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAAGTAAA
TCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTG
CAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACC
TGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAA
TGACGGCAAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTC
ACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGC
ATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGC
TGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGG
CTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA

>g6899.t20 Gene=g6899 Length=111
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFISDVVLSSDGNYALSGSWDKTLRLWDLAAGKSTRRFEDHRCALSCF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6899.t20 Gene3D G3DSA:2.130.10.10 - 8 111 1.6E-35
3 g6899.t20 PANTHER PTHR19868:SF0 RECEPTOR OF ACTIVATED PROTEIN C KINASE 1 1 105 6.3E-43
4 g6899.t20 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 1 105 6.3E-43
1 g6899.t20 Pfam PF00400 WD domain, G-beta repeat 6 43 2.2E-4
2 g6899.t20 Pfam PF00400 WD domain, G-beta repeat 55 91 2.6E-8
8 g6899.t20 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 78 92 -
10 g6899.t20 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 11 111 20.725
11 g6899.t20 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 11 45 10.742
12 g6899.t20 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 59 100 15.287
6 g6899.t20 SMART SM00320 WD40_4 4 44 7.1E-7
7 g6899.t20 SMART SM00320 WD40_4 52 91 3.7E-7
5 g6899.t20 SUPERFAMILY SSF50978 WD40 repeat-like 3 110 7.88E-25

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.

Raw TPM values