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.t1 TSS g6899.t1 19756988 19756988
chr_2 g6899 g6899.t1 isoform g6899.t1 19757065 19758475
chr_2 g6899 g6899.t1 exon g6899.t1.exon1 19757065 19757173
chr_2 g6899 g6899.t1 cds g6899.t1.CDS1 19757065 19757173
chr_2 g6899 g6899.t1 exon g6899.t1.exon2 19757245 19757398
chr_2 g6899 g6899.t1 cds g6899.t1.CDS2 19757245 19757398
chr_2 g6899 g6899.t1 exon g6899.t1.exon3 19757458 19757512
chr_2 g6899 g6899.t1 cds g6899.t1.CDS3 19757458 19757512
chr_2 g6899 g6899.t1 exon g6899.t1.exon4 19757837 19758475
chr_2 g6899 g6899.t1 cds g6899.t1.CDS4 19757837 19758475
chr_2 g6899 g6899.t1 TTS g6899.t1 19758558 19758558

Sequences

>g6899.t1 Gene=g6899 Length=957
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGT
TTTGAGGATCACACAAAGGATGTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTCAAATC
GTTTCTGGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAGCCGAGTGCAAATAC
ACCATTCAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAA
GTAAATCCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCA
AACTGCAAATTGAAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTT
TCACCTGATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGAT
TTGAATGACGGCAAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGC
TTCTCACCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGAT
TTGGCATGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCA
AAGGCTGATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTT
GCCGGCTACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA

>g6899.t1 Gene=g6899 Length=318
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFISDVVLSSDGNYALSGSWDKTLRLWDLAAGKSTRRFEDHTKDVLSVAFSADNRQI
VSGSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWDKTVKVWNLA
NCKLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLEHNDIINALC
FSPNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLAWSTDGQTLF
AGYSDNKIRVWQVSVTAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g6899.t1 CDD cd00200 WD40 7 312 2.9965E-95
13 g6899.t1 Gene3D G3DSA:2.130.10.10 - 8 318 2.7E-128
8 g6899.t1 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 1 315 9.9E-157
9 g6899.t1 PRINTS PR00320 G protein beta WD-40 repeat signature 78 92 8.7E-9
11 g6899.t1 PRINTS PR00320 G protein beta WD-40 repeat signature 120 134 8.7E-9
10 g6899.t1 PRINTS PR00320 G protein beta WD-40 repeat signature 165 179 8.7E-9
3 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 6 43 0.0013
4 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 55 91 1.6E-7
6 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 96 133 8.2E-8
5 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 140 178 1.9E-6
2 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 187 220 0.0015
7 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 224 260 2.6E-5
1 g6899.t1 Pfam PF00400 WD domain, G-beta repeat 289 311 0.0027
16 g6899.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 78 92 -
18 g6899.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 120 134 -
17 g6899.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 165 179 -
15 g6899.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 207 221 -
26 g6899.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 11 318 52.994
28 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 11 45 10.742
29 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 59 100 15.287
32 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 101 133 15.22
30 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 144 179 13.316
31 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 188 229 12.881
27 g6899.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 289 318 10.375
20 g6899.t1 SMART SM00320 WD40_4 4 44 7.1E-7
25 g6899.t1 SMART SM00320 WD40_4 52 91 3.7E-7
19 g6899.t1 SMART SM00320 WD40_4 94 133 4.9E-10
23 g6899.t1 SMART SM00320 WD40_4 135 178 2.3E-9
21 g6899.t1 SMART SM00320 WD40_4 181 220 7.3E-4
22 g6899.t1 SMART SM00320 WD40_4 223 260 2.1E-5
24 g6899.t1 SMART SM00320 WD40_4 277 312 0.25
12 g6899.t1 SUPERFAMILY SSF50978 WD40 repeat-like 4 312 2.62E-75

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

Pathway

  • This transcript belongs to the following pathways

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