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.t18 TSS g6899.t18 19756988 19756988
chr_2 g6899 g6899.t18 isoform g6899.t18 19757065 19758475
chr_2 g6899 g6899.t18 exon g6899.t18.exon1 19757065 19757173
chr_2 g6899 g6899.t18 cds g6899.t18.CDS1 19757065 19757173
chr_2 g6899 g6899.t18 exon g6899.t18.exon2 19757245 19757398
chr_2 g6899 g6899.t18 cds g6899.t18.CDS2 19757245 19757398
chr_2 g6899 g6899.t18 exon g6899.t18.exon3 19757458 19757506
chr_2 g6899 g6899.t18 cds g6899.t18.CDS3 19757458 19757506
chr_2 g6899 g6899.t18 exon g6899.t18.exon4 19757837 19758475
chr_2 g6899 g6899.t18 cds g6899.t18.CDS4 19757837 19758475
chr_2 g6899 g6899.t18 TTS g6899.t18 19758558 19758558

Sequences

>g6899.t18 Gene=g6899 Length=951
ATGACCGAAACTTTGCAATTAAAAGGAACTCTTATCGGCCATTCAGGATGGGTAACTCAA
ATTGCTACTAATCCCAAATATCCTGATATGATTTTGTCATCGTCTCGAGACAAGACTTTG
ATTGTATGGCGTTTATTGCGTGAAGCTAATAGCTACGGTATTCCTCAAAAGCGTTTGTAT
GGACACAGCCATTTTATCAGTGACGTTGTTCTCTCATCTGACGGAAATTATGCTCTTTCT
GGATCATGGGACAAGACTTTGAGATTGTGGGATTTGGCAGCAGGAAAATCAACTCGTCGT
TTTGAGGATCACGATGTGCTCTCAGTTGCTTTTAGCGCTGACAATCGTCAAATCGTTTCT
GGCTCACGCGATAAGACTATTAAATTGTGGAATACATTAGCCGAGTGCAAATACACCATT
CAAGAAGATGGCCACTCTGACTGGGTCTCATGCGTTCGTTTCTCACCAAATCAAGTAAAT
CCAATCATTGTTTCTGCTGGTTGGGATAAAACTGTTAAGGTCTGGAACTTGGCAAACTGC
AAATTGAAGTTGAACCATTACGGTCACAATGGATACTTGAATACTGTCACTGTTTCACCT
GATGGTTCATTGTGCACATCAGGCGGTAAGGACTACAAGGCTTTGTTGTGGGATTTGAAT
GACGGCAAGCACTTGCACACACTTGAACATAACGACATCATCAATGCCTTATGCTTCTCA
CCAAACCGCTACTGGTTGTGCGTTGCTTACGGATCATCAATCAAGATTTGGGATTTGGCA
TGCAAGAAAATGGTTGAAGAATTGCGTCCAGGTGTCTCGACAAACGATTCATCAAAGGCT
GATCCACCACAGTGCTTGTCACTTGCTTGGTCAACTGATGGACAAACTTTGTTTGCCGGC
TACAGCGATAACAAGATTCGCGTTTGGCAAGTTTCAGTTACTGCTCGTTAA

>g6899.t18 Gene=g6899 Length=316
MTETLQLKGTLIGHSGWVTQIATNPKYPDMILSSSRDKTLIVWRLLREANSYGIPQKRLY
GHSHFISDVVLSSDGNYALSGSWDKTLRLWDLAAGKSTRRFEDHDVLSVAFSADNRQIVS
GSRDKTIKLWNTLAECKYTIQEDGHSDWVSCVRFSPNQVNPIIVSAGWDKTVKVWNLANC
KLKLNHYGHNGYLNTVTVSPDGSLCTSGGKDYKALLWDLNDGKHLHTLEHNDIINALCFS
PNRYWLCVAYGSSIKIWDLACKKMVEELRPGVSTNDSSKADPPQCLSLAWSTDGQTLFAG
YSDNKIRVWQVSVTAR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g6899.t18 CDD cd00200 WD40 7 310 1.54257E-92
13 g6899.t18 Gene3D G3DSA:2.130.10.10 - 8 316 5.0E-125
8 g6899.t18 PANTHER PTHR19868 RECEPTOR FOR ACTIVATED PROTEIN KINASE C RACK1 1 313 1.3E-152
9 g6899.t18 PRINTS PR00320 G protein beta WD-40 repeat signature 78 92 8.6E-9
10 g6899.t18 PRINTS PR00320 G protein beta WD-40 repeat signature 118 132 8.6E-9
11 g6899.t18 PRINTS PR00320 G protein beta WD-40 repeat signature 163 177 8.6E-9
5 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 6 43 0.0013
6 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 55 91 1.5E-7
7 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 96 131 4.5E-7
2 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 138 176 1.9E-6
4 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 185 218 0.0015
3 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 222 258 2.6E-5
1 g6899.t18 Pfam PF00400 WD domain, G-beta repeat 287 309 0.0027
15 g6899.t18 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 78 92 -
16 g6899.t18 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 118 132 -
18 g6899.t18 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 163 177 -
17 g6899.t18 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 205 219 -
26 g6899.t18 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 11 316 47.141
29 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 11 45 10.742
30 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 59 100 15.287
31 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 106 131 11.879
28 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 142 177 13.316
27 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 186 227 12.881
32 g6899.t18 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 287 316 10.375
22 g6899.t18 SMART SM00320 WD40_4 4 44 7.1E-7
25 g6899.t18 SMART SM00320 WD40_4 52 91 3.7E-7
24 g6899.t18 SMART SM00320 WD40_4 94 131 1.4E-6
21 g6899.t18 SMART SM00320 WD40_4 133 176 2.3E-9
20 g6899.t18 SMART SM00320 WD40_4 179 218 7.3E-4
19 g6899.t18 SMART SM00320 WD40_4 221 258 2.1E-5
23 g6899.t18 SMART SM00320 WD40_4 275 310 0.25
12 g6899.t18 SUPERFAMILY SSF50978 WD40 repeat-like 4 310 8.06E-72

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