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.t14 TSS g6899.t14 19756988 19756988
chr_2 g6899 g6899.t14 isoform g6899.t14 19757065 19758475
chr_2 g6899 g6899.t14 exon g6899.t14.exon1 19757065 19757173
chr_2 g6899 g6899.t14 cds g6899.t14.CDS1 19757065 19757173
chr_2 g6899 g6899.t14 exon g6899.t14.exon2 19757245 19757398
chr_2 g6899 g6899.t14 cds g6899.t14.CDS2 19757245 19757398
chr_2 g6899 g6899.t14 exon g6899.t14.exon3 19757827 19758475
chr_2 g6899 g6899.t14 cds g6899.t14.CDS3 19757827 19758475
chr_2 g6899 g6899.t14 TTS g6899.t14 19758558 19758558

Sequences

>g6899.t14 Gene=g6899 Length=912
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGAATATTACAGGATGTGCTCTCAGTTGCTTTTAGCGCT
GACAATCGTCAAATCGTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTA
GCCGAGTGCAAATACACCATTCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGT
TTCTCACCAAATCAAGTAAATCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAG
GTCTGGAACTTGGCAAACTGCAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTG
AATACTGTCACTGTTTCACCTGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAG
GCTTTGTTGTGGGATTTGAATGACGGCAAGCACTTGCACACACTTGAACATAACGACATC
ATCAATGCCTTATGCTTCTCACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCA
ATCAAGATTTGGGATTTGGCATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCG
ACAAACGATTCATCAAAGGCTGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGAT
GGACAAACTTTGTTTGCCGGCTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTT
ACTGCTCGTTAA

>g6899.t14 Gene=g6899 Length=303
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFISDVVLSSDGNYALSGSWDKTLRILQDVLSVAFSADNRQIVSGSRDKTIKLWNTL
AECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWDKTVKVWNLANCKLKLNHYGHNGYL
NTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLEHNDIINALCFSPNRYWLCVAYGSS
IKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLAWSTDGQTLFAGYSDNKIRVWQVSV
TAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g6899.t14 CDD cd00200 WD40 7 297 1.53951E-84
13 g6899.t14 Gene3D G3DSA:2.130.10.10 - 8 303 6.4E-115
8 g6899.t14 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 1 300 4.3E-140
9 g6899.t14 PRINTS PR00320 G protein beta WD-40 repeat signature 31 45 1.1E-7
11 g6899.t14 PRINTS PR00320 G protein beta WD-40 repeat signature 105 119 1.1E-7
10 g6899.t14 PRINTS PR00320 G protein beta WD-40 repeat signature 150 164 1.1E-7
2 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 6 43 0.0013
7 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 55 89 3.5E-5
1 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 92 118 2.1E-5
5 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 125 163 1.8E-6
6 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 172 205 0.0014
4 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 209 245 2.5E-5
3 g6899.t14 Pfam PF00400 WD domain, G-beta repeat 274 296 0.0025
16 g6899.t14 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 105 119 -
15 g6899.t14 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 150 164 -
17 g6899.t14 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 192 206 -
25 g6899.t14 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 11 303 34.328
27 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 11 45 10.742
26 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 59 89 9.205
29 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 93 118 11.879
31 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 129 164 13.316
28 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 173 214 12.881
30 g6899.t14 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 274 303 10.375
19 g6899.t14 SMART SM00320 WD40_4 4 44 7.1E-7
24 g6899.t14 SMART SM00320 WD40_4 52 91 9.6E-4
18 g6899.t14 SMART SM00320 WD40_4 92 118 1.2
23 g6899.t14 SMART SM00320 WD40_4 120 163 2.3E-9
22 g6899.t14 SMART SM00320 WD40_4 166 205 7.3E-4
21 g6899.t14 SMART SM00320 WD40_4 208 245 2.1E-5
20 g6899.t14 SMART SM00320 WD40_4 262 297 0.25
12 g6899.t14 SUPERFAMILY SSF50978 WD40 repeat-like 4 297 1.19E-65

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