Gene loci information

Transcript annotation

  • This transcript has been annotated as WD repeat-containing protein 7.

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 g8888 g8888.t1 TSS g8888.t1 33705727 33705727
chr_2 g8888 g8888.t1 isoform g8888.t1 33705956 33708212
chr_2 g8888 g8888.t1 exon g8888.t1.exon1 33705956 33706136
chr_2 g8888 g8888.t1 cds g8888.t1.CDS1 33705956 33706136
chr_2 g8888 g8888.t1 exon g8888.t1.exon2 33706199 33706868
chr_2 g8888 g8888.t1 cds g8888.t1.CDS2 33706199 33706868
chr_2 g8888 g8888.t1 exon g8888.t1.exon3 33706928 33707187
chr_2 g8888 g8888.t1 cds g8888.t1.CDS3 33706928 33707187
chr_2 g8888 g8888.t1 exon g8888.t1.exon4 33707248 33708212
chr_2 g8888 g8888.t1 cds g8888.t1.CDS4 33707248 33708212
chr_2 g8888 g8888.t1 TTS g8888.t1 NA NA

Sequences

>g8888.t1 Gene=g8888 Length=2076
ATGCTGGCAACAAATTTAGTGGTCCCTGTTGTTTTATGGGGTCCAAATACACCAACTCAT
TGTGTTTCGAGTGTATTTTTATCACGAGACCAGCGAACTTTAGCAACTGGATGTTATGAT
GGACAAATTTGTTTATGGCAAATTGATTCAGACTTTGATATGACGCCTCGCTGTTTATTG
CTTGGTCATAGTGCTCCAGTTTTGTGCTTATCGCGAGCATCAATTGTTCAAGACAATAAT
TTTCTTGTGAGTTCAAGTGAGAATGGAGAAATGTGTACTTGGGATTTGATTGATGGCAAA
TGTCGAGAGAGTGTCAAATTATCACAAGTTCATACATGCATTCAAGCTTATCACATGTCA
AATTGTGATGATATTCGTTTGTTTTGCATTGGATATTATGCAGAAATTATGGTCATGGAT
CCATTTAGTTTAGAAGTTCTTTTCTGTCTATCATCGAAAGTTAATCCTGATTGGATATCT
GCATTGCATGTTTTGCGTCCTGCAAAAAGAAAAGATGATGTAGTTCTTGCAATTACAACA
ACAGGAACTGTAAAAGTTTGGACATTAATTGGCAACGAGAATAAATATTCTGAGCCCATC
TATGAGAATGAATCGAAGCAAATACGTTGCTTAAATGCAATCACGATGGCATGTTGCTCC
CAAAATCAGCGAACTGTACTTATTGTCTGTGCGAAATACTGGCAAATATATGATGCTGGT
GATTTCACCGTACTCTGTTCAGTTATTTCGCCTTCGGGCGAACGCTGGCTTGGTGGTGAC
TTTTTATCGAGTGATCGTGTAATTCTCTGGTCGGATGAGGGCAAAGGATATCTTTATCGA
TTACCTGCCAACTCTATACCCGACAACAAAGAATTTCATGGTCCTTCTGTTGGAAGAGAT
GCACCATTTTTGTATTGTGTTTTGACAAACAAAAATGAACAGCCATTGTCGTGTCCACCA
TCGATGAAGTTGGTTCAAACAACTCGCGGTGGAAAGACACAAAAGTATTTGCTAAGAGGC
GATTCAGAAGGATTCATAAATATGTGGGCAGTGCCTGATTTTTCACTTGATGAAATCAAG
CAATTACAAACAGCTAATGCAACAACTAAAATTCTTCAAAATACAATATCAACAAGTTTA
GAACAAGCATGGAGTAAAATGAATCCACCACCAGTTGGAATTTTAGATCAATTGAATCAT
CCTAATGAACCCATTATAAAATTAACAGCGAGTATTTATTTGCCATTACAAAGTCGTTTA
GTTGTTGGTAGAGAGGATGGAACTATTATTATTGTTCCAGCGACACAAACTGTAATGTTG
CAACTCTTGCATGGAAAACATCAGCAATTCAACGATTGGCCACCGCATCAATTATTGAGC
GGCCACTCTGGACGAGTAAATTGCTTGCTCTATCCATATTTGGTACATACGAGATACGAT
AAAGCACATTTGCTGTCTGGAGGTGTTGACTTTGCTGTTTGTTTATGGGACTTATATAGT
GGAACATTACTTCATCGTTTTTGCGTTCATGCTGGTGAAGTTACACAACTTTTAGTTCCA
CCAGAAAATTGCAGTCCACGCATTCAAAAATGCATCTGTTCAGTTGCTTCAGATCATTCA
GTGACATTGTTGAGTTTACAAGAAAGAAAATGCGTGACACTCGCTAGTCGTCATCTATTT
CCTGTTGTTACAATTAAATGGCGACCACTCGATGATTTCTTAATTGTCGGTTGTTCCGAT
GGTACAGTTTATGTCTGGCAAATGGAAACTGGTCATTTAGATCGTGTACTTCATGGAATG
ATTGCTGAAGAAGTTTTAAATGCTTGCGATGAAAATACTGGCGAAGGTGAAGTTAGTGGA
TCATCATCAGAAATTGGAATGTCAAATCCAGCTGTTCATTTCTTCCGTGGTTTAAGACAT
CGTAATTTGAACGCAATTCGTCATGCAACACAGAGAGGAATTCACCAATTACAACAACTT
AATGCTCACAACAACAACGATGGAAATTTCCTAATGAAAAACAGAAATAGTCCGCTAATC
ATTCAAAGTTTAAGAACAAATCCAAAAGGTAAGTAA

>g8888.t1 Gene=g8888 Length=691
MLATNLVVPVVLWGPNTPTHCVSSVFLSRDQRTLATGCYDGQICLWQIDSDFDMTPRCLL
LGHSAPVLCLSRASIVQDNNFLVSSSENGEMCTWDLIDGKCRESVKLSQVHTCIQAYHMS
NCDDIRLFCIGYYAEIMVMDPFSLEVLFCLSSKVNPDWISALHVLRPAKRKDDVVLAITT
TGTVKVWTLIGNENKYSEPIYENESKQIRCLNAITMACCSQNQRTVLIVCAKYWQIYDAG
DFTVLCSVISPSGERWLGGDFLSSDRVILWSDEGKGYLYRLPANSIPDNKEFHGPSVGRD
APFLYCVLTNKNEQPLSCPPSMKLVQTTRGGKTQKYLLRGDSEGFINMWAVPDFSLDEIK
QLQTANATTKILQNTISTSLEQAWSKMNPPPVGILDQLNHPNEPIIKLTASIYLPLQSRL
VVGREDGTIIIVPATQTVMLQLLHGKHQQFNDWPPHQLLSGHSGRVNCLLYPYLVHTRYD
KAHLLSGGVDFAVCLWDLYSGTLLHRFCVHAGEVTQLLVPPENCSPRIQKCICSVASDHS
VTLLSLQERKCVTLASRHLFPVVTIKWRPLDDFLIVGCSDGTVYVWQMETGHLDRVLHGM
IAEEVLNACDENTGEGEVSGSSSEIGMSNPAVHFFRGLRHRNLNAIRHATQRGIHQLQQL
NAHNNNDGNFLMKNRNSPLIIQSLRTNPKGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g8888.t1 Gene3D G3DSA:2.130.10.10 - 16 299 6.8E-22
16 g8888.t1 Gene3D G3DSA:2.130.10.10 - 398 683 3.4E-26
4 g8888.t1 PANTHER PTHR44099 RABCONNECTIN-3B, ISOFORM A 5 689 2.9E-236
3 g8888.t1 Pfam PF00400 WD domain, G-beta repeat 19 46 0.041
1 g8888.t1 Pfam PF00400 WD domain, G-beta repeat 459 497 0.054
2 g8888.t1 Pfam PF00400 WD domain, G-beta repeat 556 586 0.024
13 g8888.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 82 96 -
14 g8888.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 484 498 -
17 g8888.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 15 104 12.077
18 g8888.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 459 596 16.638
19 g8888.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 555 596 11.31
12 g8888.t1 SMART SM00320 WD40_4 5 47 0.46
10 g8888.t1 SMART SM00320 WD40_4 53 95 4.2
8 g8888.t1 SMART SM00320 WD40_4 204 238 470.0
7 g8888.t1 SMART SM00320 WD40_4 452 497 0.41
9 g8888.t1 SMART SM00320 WD40_4 500 545 15.0
11 g8888.t1 SMART SM00320 WD40_4 548 587 6.2E-4
6 g8888.t1 SUPERFAMILY SSF50978 WD40 repeat-like 12 599 4.58E-41
5 g8888.t1 SUPERFAMILY SSF50978 WD40 repeat-like 20 353 9.89E-26

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