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.t28 TSS g6899.t28 19756988 19756988
chr_2 g6899 g6899.t28 isoform g6899.t28 19757065 19758475
chr_2 g6899 g6899.t28 exon g6899.t28.exon1 19757065 19757173
chr_2 g6899 g6899.t28 cds g6899.t28.CDS1 19757065 19757173
chr_2 g6899 g6899.t28 exon g6899.t28.exon2 19757266 19757398
chr_2 g6899 g6899.t28 cds g6899.t28.CDS2 19757266 19757398
chr_2 g6899 g6899.t28 exon g6899.t28.exon3 19757458 19757512
chr_2 g6899 g6899.t28 cds g6899.t28.CDS3 19757458 19757512
chr_2 g6899 g6899.t28 exon g6899.t28.exon4 19757837 19758475
chr_2 g6899 g6899.t28 cds g6899.t28.CDS4 19757837 19758475
chr_2 g6899 g6899.t28 TTS g6899.t28 19758558 19758558

Sequences

>g6899.t28 Gene=g6899 Length=936
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGGTTTATTGCGT
GAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTATGGACACAGCCATTTTATCAGT
GACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCTGGATCATGGGACAAGACTTTG
AGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGTTTTGAGGATCACACAAAGGAT
GTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTCAAATCGTTTCTGGCTCACGCGATAAG
ACTATTAAATTGTGGAATACATTAGCCGAGTGCAAATACACCATTCAAGAAGATGGCCAC
TCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAAGTAAATCCAATCATTGTTTCT
GCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTGCAAATTGAAGTTGAAC
CATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACCTGATGGTTCATTGTGC
ACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAATGACGGCAAGCACTTG
CACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTCACCAAACCGCTACTGG
TTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGCATGCAAGAAAATGGTT
GAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGCTGATCCACCACAGTGC
TTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGGCTACAGCGATAACAAG
ATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA

>g6899.t28 Gene=g6899 Length=311
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRGLLREANSYGIPQKRLYGHSHFIS
DVVLSSDGNYALSGSWDKTLRLWDLAAGKSTRRFEDHTKDVLSVAFSADNRQIVSGSRDK
TIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWDKTVKVWNLANCKLKLN
HYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLEHNDIINALCFSPNRYW
LCVAYGSSIKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLAWSTDGQTLFAGYSDNK
IRVWQVSVTAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g6899.t28 CDD cd00200 WD40 7 305 5.63553E-89
12 g6899.t28 Gene3D G3DSA:2.130.10.10 - 8 311 3.9E-120
7 g6899.t28 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 1 308 1.9E-148
10 g6899.t28 PRINTS PR00320 G protein beta WD-40 repeat signature 71 85 8.3E-9
9 g6899.t28 PRINTS PR00320 G protein beta WD-40 repeat signature 113 127 8.3E-9
8 g6899.t28 PRINTS PR00320 G protein beta WD-40 repeat signature 158 172 8.3E-9
6 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 48 84 1.5E-7
5 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 89 126 7.9E-8
2 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 133 171 1.8E-6
4 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 180 213 0.0014
1 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 217 253 2.6E-5
3 g6899.t28 Pfam PF00400 WD domain, G-beta repeat 282 304 0.0026
17 g6899.t28 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 71 85 -
16 g6899.t28 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 113 127 -
14 g6899.t28 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 158 172 -
15 g6899.t28 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 200 214 -
25 g6899.t28 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 52 311 47.378
30 g6899.t28 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 52 93 15.287
29 g6899.t28 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 94 126 15.22
27 g6899.t28 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 137 172 13.316
26 g6899.t28 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 181 222 12.881
28 g6899.t28 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 282 311 10.375
24 g6899.t28 SMART SM00320 WD40_4 4 43 2.6
22 g6899.t28 SMART SM00320 WD40_4 45 84 3.7E-7
21 g6899.t28 SMART SM00320 WD40_4 87 126 4.9E-10
20 g6899.t28 SMART SM00320 WD40_4 128 171 2.3E-9
23 g6899.t28 SMART SM00320 WD40_4 174 213 7.3E-4
19 g6899.t28 SMART SM00320 WD40_4 216 253 2.1E-5
18 g6899.t28 SMART SM00320 WD40_4 270 305 0.25
11 g6899.t28 SUPERFAMILY SSF50978 WD40 repeat-like 4 305 8.7E-71

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