Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 TSS g6899.t2 19756988 19756988
chr_2 g6899 g6899.t2 isoform g6899.t2 19757025 19758475
chr_2 g6899 g6899.t2 exon g6899.t2.exon1 19757025 19757115
chr_2 g6899 g6899.t2 cds g6899.t2.CDS1 19757112 19757115
chr_2 g6899 g6899.t2 exon g6899.t2.exon2 19757925 19758475
chr_2 g6899 g6899.t2 cds g6899.t2.CDS2 19757925 19758475
chr_2 g6899 g6899.t2 TTS g6899.t2 19758558 19758558

Sequences

>g6899.t2 Gene=g6899 Length=642
TCTTTGAAAATTTTATTAAAAATAATAAAATAGAGTCAAAATGACCGAAACTTTGCAATT
AAAAGGAACTCTTATCGGCCATTCAGGATGGCCGAGTGCAAATACACCATTCAAGAAGAT
GGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAAGTAAATCCAATCATT
GTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTGCAAATTGAAG
TTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACCTGATGGTTCA
TTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAATGACGGCAAG
CACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTCACCAAACCGC
TACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGCATGCAAGAAA
ATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGCTGATCCACCA
CAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGGCTACAGCGAT
AACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA

>g6899.t2 Gene=g6899 Length=184
MAECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWDKTVKVWNLANCKLKLNHYGHNGY
LNTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLEHNDIINALCFSPNRYWLCVAYGS
SIKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLAWSTDGQTLFAGYSDNKIRVWQVS
VTAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g6899.t2 CDD cd00200 WD40 3 178 1.98959E-48
10 g6899.t2 Gene3D G3DSA:2.130.10.10 - 1 184 5.1E-70
5 g6899.t2 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 2 181 3.5E-83
6 g6899.t2 PRINTS PR00320 G protein beta WD-40 repeat signature 31 45 7.3E-5
8 g6899.t2 PRINTS PR00320 G protein beta WD-40 repeat signature 73 87 7.3E-5
7 g6899.t2 PRINTS PR00320 G protein beta WD-40 repeat signature 165 179 7.3E-5
4 g6899.t2 Pfam PF00400 WD domain, G-beta repeat 6 44 8.0E-7
3 g6899.t2 Pfam PF00400 WD domain, G-beta repeat 53 86 6.4E-4
1 g6899.t2 Pfam PF00400 WD domain, G-beta repeat 90 126 1.1E-5
2 g6899.t2 Pfam PF00400 WD domain, G-beta repeat 155 177 0.0012
12 g6899.t2 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 31 45 -
13 g6899.t2 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 73 87 -
18 g6899.t2 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 10 184 26.498
20 g6899.t2 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 10 45 13.316
19 g6899.t2 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 54 95 12.881
21 g6899.t2 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 155 184 10.375
14 g6899.t2 SMART SM00320 WD40_4 1 44 1.1E-9
17 g6899.t2 SMART SM00320 WD40_4 47 86 7.3E-4
15 g6899.t2 SMART SM00320 WD40_4 89 126 2.1E-5
16 g6899.t2 SMART SM00320 WD40_4 143 178 0.25
9 g6899.t2 SUPERFAMILY SSF50978 WD40 repeat-like 6 180 6.72E-40

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