Gene loci information

Transcript annotation

  • This transcript has been annotated as WD repeat-containing protein 3.

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_1 g9422 g9422.t1 TSS g9422.t1 2844453 2844453
chr_1 g9422 g9422.t1 isoform g9422.t1 2844530 2847307
chr_1 g9422 g9422.t1 exon g9422.t1.exon1 2844530 2844687
chr_1 g9422 g9422.t1 cds g9422.t1.CDS1 2844530 2844687
chr_1 g9422 g9422.t1 exon g9422.t1.exon2 2844742 2847307
chr_1 g9422 g9422.t1 cds g9422.t1.CDS2 2844742 2847307
chr_1 g9422 g9422.t1 TTS g9422.t1 2847370 2847370

Sequences

>g9422.t1 Gene=g9422 Length=2724
ATGGGTGTTACAAAACAATATTTGCGATATAAACCTGCTGGAATATTTAATATCATTGCA
AGTTCTCGAGTTAATGGAGTATTTGTTGATTTCAATGGAATTAGTGGAAGATATTTTGCT
TCTGGTGCGGCTGAAAATATTTTAATTTGGGATTTAAGAACTGGACAGAAAATAAGTGAA
TTGACTCGAGATAAAGAAGAAGTAACTTGTCTAAGAAGTTATGGAAATAAACTTGCTGCA
GGATATGTTGATGGAAATATTGTGCTATTTGATGTTGATACAAAATCAAATGAATGCATG
TTCACTCCTCACACATCAGCCATCACATGTCTTCAGTTTGATGCCGGTGGTATGAATTTA
ATAAGTGGAAGTTTAGATACAGATAGTGTAGTATCTGATCTCGTTGATCAAGTTGGAAAA
TGTCGATTGAGTGGACATTCAGCACCAGTTACAGCTTGTGTTTTCTTAGAAACTTACAAA
AATGTTGCAGTTACAAGTTCAAGAGATATGCAAGTGAAATTTTGGAATATCGAGACTCAA
TTTTGCTTTAAAACTCTTGTTGACAATATTACAGAAATTTGGGGACTCACATTGCTCAGA
GATGAAACTTTTCTTGTAACTGGTTCAAAAGAAACTGCCTTGCGTGTATACAAATTGACG
GAAAATAAGTCACACACTGAAAGTCTTGAACTTACAAATTCAATTTTAGCAGACGATGAT
TCAATAAGTCCATTAAGATGCAATTTTGTTGGTCTTATTCAAAGAGCAAGCAAAGGTCGA
ACGTTAAATTTGATATCAGATAATCAAGGTCAAATTTTAGCTTGTAGTGGAACAAATGAT
GAAATAGAACTTTTTTACTTCAATTCAAAAGAAGAAGCCATGAAAAGATTATCAAAACGA
TTGAAAAAGTTGTCAATAAAAAAAGATACAGAATCAGATACATCTGAAATAAGTAAAGAA
ATAACATTGACAGATGAAATTAGAAGAATTGGTTCGATAAAAACTAAAGATAGAGTGAAA
TCTATTGATTTAATATTAAGTGGAACTGGTGAACTTCGAGTTGGTGTTGTTTTCAGTAGT
AATATAATTCGTCATTATAGCATCAATACAGCACAGAAAAACCCTGAACCTCTCTTATTA
CATTCAATTTCACAACAAGGTCATCATACGGAATGTCGAAGTATTTGCTTTAGTTCAGAC
AATCTTGCAATTGCGTCTGGTAGTGGAGAATCATTGAAATTATGGAATCGTAATACTTTA
TCATGCTTGCGTACTGTCGAAACCGATTACATCTTATCAACTTGTTTTGTGCCTGGCGAT
CGACATGTTCTACTTGGAACTAAAAAAGGAAATCTTATAATCGTTGACATTGTAGTAGGT
GAAATAATAGAAACAATTCAAGCACATGAGAAAGAATTATGGAGTGTAAGTCTCGCACCA
AATTTAAGAAGTTGTGTAACAGGTGGTGGTGATAGTACAGTAAAATTTTGGTCATTTGAA
CTTATTCCTGATCCTAATAATGAAGCAAGCAAAGTTCTCTCTTTAATTCATAAAAATACT
TTAGAACTCGAAGAAAATGTTCTCTTTGCTAAAATCACACCAGATAACAAATATATTGCC
GTTGCATTATTAGATTCAACAGTCAAAATTTTCTTTATGGATACATTCAAATTCTTTTTA
TCACTCTATGGTCATAAACTGCCAGTTTTGTGTTTTGACGTATGTTATGATAATACATTG
ATAGCAACAGGCTCAGCTGACAGAAATGTAAAAATTTGGGGTATGGATTTTGGTGACGTT
CATAGGTCACTTTTTGCACATGACGATTCAGTAATGGCTCTTCAATTTATTCCTAAAACA
CATATGTTTTTTACATGTGGCAAAGATGGAAAGATTAAACAATGGGATGCAGATTCATTC
AATAAAATTATCACATTGCCAGGGCATATTGGTGAAGCTTATGGACTTTGTGTTAGTCCC
AATGGTCGTTATCTCGTTACATGTGGTTCTGATCGAACATTGAGGATATTTGAAAAGAGT
GATGAAGTACTTGTATTACAAGATGTCGAAGAGGAAGAAAGAGAAGAAGCTGAAAATAAA
GAACTTGCAACTGGTGAAGAATCGAATGCTCCTGGCTTGCCTGGACTTAATCTTCCATCG
AAAAAGACTGTTGGTGCAGAGAAAGCTGCTGAAAATATAATTGAATGTCTTGAATTAAGT
AAGAAATTAGATGAAGACATGCCAAAAGAAGTTCCAGTTATTATGCAATTCTACGAAGCA
AAAACAACAAATGATTATCTGCTCGGAGTGTTTTCAAAAATTCGAACAAGTGATTTAGAA
GAAGCTTTACTTTTATTACCTTTCTCAAATGTCTGCGAAATTCTCGAGCGTTTGCCAAAA
ATTGCAGATCAACGTGGTGATGAGATTGAGTTAATATGTAAAGTTACTATGTTTCTATTT
CGAGTTCATCATAAGTCAATCGTTTCAAATCAAATTCTTCTCTCATCAATACAAAAGTTG
ATTGAACGACTCGAGTCATCTATTGTAGAAATAAGAGATATGATTGGTGAAAATATTCAT
GCATGGAGCCTCTTGCAACGTAGAATTGAGGGTGAAAATAAAGTCGAATTATTTAAGGAT
GCCACACGAGCTCGTAAAGTGAAGAATCAAAAACAAAAGAAAAAAAGAATAGCAAAAAGA
GTTCACATGCAAATTACAGCTTAA

>g9422.t1 Gene=g9422 Length=907
MGVTKQYLRYKPAGIFNIIASSRVNGVFVDFNGISGRYFASGAAENILIWDLRTGQKISE
LTRDKEEVTCLRSYGNKLAAGYVDGNIVLFDVDTKSNECMFTPHTSAITCLQFDAGGMNL
ISGSLDTDSVVSDLVDQVGKCRLSGHSAPVTACVFLETYKNVAVTSSRDMQVKFWNIETQ
FCFKTLVDNITEIWGLTLLRDETFLVTGSKETALRVYKLTENKSHTESLELTNSILADDD
SISPLRCNFVGLIQRASKGRTLNLISDNQGQILACSGTNDEIELFYFNSKEEAMKRLSKR
LKKLSIKKDTESDTSEISKEITLTDEIRRIGSIKTKDRVKSIDLILSGTGELRVGVVFSS
NIIRHYSINTAQKNPEPLLLHSISQQGHHTECRSICFSSDNLAIASGSGESLKLWNRNTL
SCLRTVETDYILSTCFVPGDRHVLLGTKKGNLIIVDIVVGEIIETIQAHEKELWSVSLAP
NLRSCVTGGGDSTVKFWSFELIPDPNNEASKVLSLIHKNTLELEENVLFAKITPDNKYIA
VALLDSTVKIFFMDTFKFFLSLYGHKLPVLCFDVCYDNTLIATGSADRNVKIWGMDFGDV
HRSLFAHDDSVMALQFIPKTHMFFTCGKDGKIKQWDADSFNKIITLPGHIGEAYGLCVSP
NGRYLVTCGSDRTLRIFEKSDEVLVLQDVEEEEREEAENKELATGEESNAPGLPGLNLPS
KKTVGAEKAAENIIECLELSKKLDEDMPKEVPVIMQFYEAKTTNDYLLGVFSKIRTSDLE
EALLLLPFSNVCEILERLPKIADQRGDEIELICKVTMFLFRVHHKSIVSNQILLSSIQKL
IERLESSIVEIRDMIGENIHAWSLLQRRIEGENKVELFKDATRARKVKNQKQKKKRIAKR
VHMQITA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g9422.t1 CDD cd00200 WD40 386 678 2.97341E-57
15 g9422.t1 Coils Coil Coil 287 307 -
16 g9422.t1 Coils Coil Coil 686 706 -
12 g9422.t1 Gene3D G3DSA:2.130.10.10 - 19 325 4.3E-36
13 g9422.t1 Gene3D G3DSA:2.130.10.10 - 326 518 4.5E-21
14 g9422.t1 Gene3D G3DSA:2.130.10.10 - 519 709 2.0E-37
31 g9422.t1 MobiDBLite mobidb-lite consensus disorder prediction 688 717 -
8 g9422.t1 PANTHER PTHR19853 WD REPEAT CONTAINING PROTEIN 3 WDR3 4 899 1.3E-271
9 g9422.t1 PANTHER PTHR19853:SF0 WD REPEAT-CONTAINING PROTEIN 3 4 899 1.3E-271
3 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 143 176 0.065
6 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 381 416 0.27
4 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 463 498 0.14
5 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 560 593 1.3E-4
7 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 602 636 0.01
2 g9422.t1 Pfam PF00400 WD domain, G-beta repeat 641 677 2.1E-5
1 g9422.t1 Pfam PF04003 Dip2/Utp12 Family 765 866 2.1E-15
30 g9422.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 163 177 -
32 g9422.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 19 687 37.835
33 g9422.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 143 185 10.676
36 g9422.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 466 500 11.31
35 g9422.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 562 603 11.678
34 g9422.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 604 645 12.447
37 g9422.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 646 678 9.74
19 g9422.t1 SMART SM00320 WD40_4 9 51 74.0
23 g9422.t1 SMART SM00320 WD40_4 54 91 0.96
26 g9422.t1 SMART SM00320 WD40_4 94 133 0.47
24 g9422.t1 SMART SM00320 WD40_4 136 176 0.0016
25 g9422.t1 SMART SM00320 WD40_4 179 218 4.3
28 g9422.t1 SMART SM00320 WD40_4 376 416 0.029
20 g9422.t1 SMART SM00320 WD40_4 419 456 10.0
29 g9422.t1 SMART SM00320 WD40_4 459 498 5.8E-5
22 g9422.t1 SMART SM00320 WD40_4 508 552 19.0
27 g9422.t1 SMART SM00320 WD40_4 555 594 1.5E-6
18 g9422.t1 SMART SM00320 WD40_4 597 636 4.0E-6
21 g9422.t1 SMART SM00320 WD40_4 639 678 7.1E-8
10 g9422.t1 SUPERFAMILY SSF50978 WD40 repeat-like 30 284 3.97E-33
11 g9422.t1 SUPERFAMILY SSF50978 WD40 repeat-like 96 683 2.38E-64

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