Gene loci information

Transcript annotation

  • This transcript has been annotated as WD repeat-containing protein 5.

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 g8147 g8147.t4 TTS g8147.t4 28790529 28790529
chr_2 g8147 g8147.t4 isoform g8147.t4 28791269 28792215
chr_2 g8147 g8147.t4 exon g8147.t4.exon1 28791269 28791481
chr_2 g8147 g8147.t4 cds g8147.t4.CDS1 28791270 28791481
chr_2 g8147 g8147.t4 exon g8147.t4.exon2 28791540 28791830
chr_2 g8147 g8147.t4 cds g8147.t4.CDS2 28791540 28791830
chr_2 g8147 g8147.t4 exon g8147.t4.exon3 28791915 28792011
chr_2 g8147 g8147.t4 cds g8147.t4.CDS3 28791915 28792011
chr_2 g8147 g8147.t4 exon g8147.t4.exon4 28792075 28792215
chr_2 g8147 g8147.t4 cds g8147.t4.CDS4 28792075 28792215
chr_2 g8147 g8147.t4 TSS g8147.t4 28792448 28792448

Sequences

>g8147.t4 Gene=g8147 Length=742
ATGATGATGCCACATCCTTCGCAACTACAAGGCCATCCAATGCATCCTGGAGCAATGCAA
CAAATGCAAGTAGCTCCACCACCGTCACAAGCTCAACAACAGCCTCAGCAACAATCTTCA
AATCGTCAATCGGCTTCACTTAAACCAAATTATACGCTAAAATTTACTTTAGCTGGTCAC
ACAAAAGCAGTTTCTGCTGTAAAGTTCAGTCCAAACGGTGAATGGCTTGCGAGTTCTTCT
GCTGATAAACTTATTAAAATTTGGGGAGCTTATGATGGTAAATTTGAAAAAACAATAGCA
GGTCACAAATTAGGAATTAGCGATGTAGCTTGGAGTAGTGACAGCCGATTGCTGGTTACA
GCTAGTGATGACAAAACATTGAAAATTTGGGAATTAAGCAGTGGAAAATGTCTGAAAACG
CTCAAAGGACACAGCAACTATGTATTTTGTTGTAATTTCAATCCGCAGAGTAATCTAATC
GTCTCTGGAAGTTTCGATGAGTCTGTGAGAATTTGGGATGTAAGAACAGGAAAATGTTTG
AAAACTTTACCAGCACATTCTGATCCTGTTTCAGCAGTTCATTTTAATCGTGATGGTTCA
TTAATTGTATCCTCGAGCTATGATGGACTTTGTCGTATTTGGGATACAGCTAGTGGTCAA
TGTTTAAAAACATTAATTGACGATGATAATCCTCCAGTGTCGTTTGTTAAATTTTCTCCA
AATGGAAAATACATTCTCGCAG

>g8147.t4 Gene=g8147 Length=247
MMMPHPSQLQGHPMHPGAMQQMQVAPPPSQAQQQPQQQSSNRQSASLKPNYTLKFTLAGH
TKAVSAVKFSPNGEWLASSSADKLIKIWGAYDGKFEKTIAGHKLGISDVAWSSDSRLLVT
ASDDKTLKIWELSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVRTGKCL
KTLPAHSDPVSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSP
NGKYILA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8147.t4 CDD cd00200 WD40 53 247 2.98512E-71
11 g8147.t4 Gene3D G3DSA:2.130.10.10 - 36 247 2.2E-103
21 g8147.t4 MobiDBLite mobidb-lite consensus disorder prediction 20 45 -
20 g8147.t4 MobiDBLite mobidb-lite consensus disorder prediction 23 45 -
5 g8147.t4 PANTHER PTHR22847:SF706 WD REPEAT DOMAIN 5 31 247 7.5E-134
6 g8147.t4 PANTHER PTHR22847 WD40 REPEAT PROTEIN 31 247 7.5E-134
7 g8147.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 118 132 1.0E-8
8 g8147.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 160 174 1.0E-8
9 g8147.t4 PRINTS PR00320 G protein beta WD-40 repeat signature 202 216 1.0E-8
2 g8147.t4 Pfam PF00400 WD domain, G-beta repeat 55 88 6.6E-9
1 g8147.t4 Pfam PF00400 WD domain, G-beta repeat 96 130 1.7E-7
3 g8147.t4 Pfam PF00400 WD domain, G-beta repeat 135 173 3.2E-10
4 g8147.t4 Pfam PF00400 WD domain, G-beta repeat 177 215 3.0E-9
17 g8147.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 118 132 -
18 g8147.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 160 174 -
19 g8147.t4 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 202 216 -
22 g8147.t4 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 57 247 54.892
25 g8147.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 57 98 15.655
23 g8147.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 99 140 17.159
24 g8147.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 141 182 18.195
26 g8147.t4 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 183 224 15.956
15 g8147.t4 SMART SM00320 WD40_4 50 89 5.5E-10
16 g8147.t4 SMART SM00320 WD40_4 92 131 5.1E-10
14 g8147.t4 SMART SM00320 WD40_4 134 173 1.6E-12
13 g8147.t4 SMART SM00320 WD40_4 176 215 3.2E-12
10 g8147.t4 SUPERFAMILY SSF50978 WD40 repeat-like 49 246 4.45E-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

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