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.t5 TSS g9422.t5 2844453 2844453
chr_1 g9422 g9422.t5 isoform g9422.t5 2844745 2847393
chr_1 g9422 g9422.t5 exon g9422.t5.exon1 2844745 2847393
chr_1 g9422 g9422.t5 cds g9422.t5.CDS1 2844881 2847307
chr_1 g9422 g9422.t5 TTS g9422.t5 2847370 2847370

Sequences

>g9422.t5 Gene=g9422 Length=2649
TGGACAGAAAATAAGTGAATTGACTCGAGATAAAGAAGAAGTAACTTGTCTAAGAAGTTA
TGGAAATAAACTTGCTGCAGGATATGTTGATGGAAATATTGTGCTATTTGATGTTGATAC
AAAATCAAATGAATGCATGTTCACTCCTCACACATCAGCCATCACATGTCTTCAGTTTGA
TGCCGGTGGTATGAATTTAATAAGTGGAAGTTTAGATACAGATAGTGTAGTATCTGATCT
CGTTGATCAAGTTGGAAAATGTCGATTGAGTGGACATTCAGCACCAGTTACAGCTTGTGT
TTTCTTAGAAACTTACAAAAATGTTGCAGTTACAAGTTCAAGAGATATGCAAGTGAAATT
TTGGAATATCGAGACTCAATTTTGCTTTAAAACTCTTGTTGACAATATTACAGAAATTTG
GGGACTCACATTGCTCAGAGATGAAACTTTTCTTGTAACTGGTTCAAAAGAAACTGCCTT
GCGTGTATACAAATTGACGGAAAATAAGTCACACACTGAAAGTCTTGAACTTACAAATTC
AATTTTAGCAGACGATGATTCAATAAGTCCATTAAGATGCAATTTTGTTGGTCTTATTCA
AAGAGCAAGCAAAGGTCGAACGTTAAATTTGATATCAGATAATCAAGGTCAAATTTTAGC
TTGTAGTGGAACAAATGATGAAATAGAACTTTTTTACTTCAATTCAAAAGAAGAAGCCAT
GAAAAGATTATCAAAACGATTGAAAAAGTTGTCAATAAAAAAAGATACAGAATCAGATAC
ATCTGAAATAAGTAAAGAAATAACATTGACAGATGAAATTAGAAGAATTGGTTCGATAAA
AACTAAAGATAGAGTGAAATCTATTGATTTAATATTAAGTGGAACTGGTGAACTTCGAGT
TGGTGTTGTTTTCAGTAGTAATATAATTCGTCATTATAGCATCAATACAGCACAGAAAAA
CCCTGAACCTCTCTTATTACATTCAATTTCACAACAAGGTCATCATACGGAATGTCGAAG
TATTTGCTTTAGTTCAGACAATCTTGCAATTGCGTCTGGTAGTGGAGAATCATTGAAATT
ATGGAATCGTAATACTTTATCATGCTTGCGTACTGTCGAAACCGATTACATCTTATCAAC
TTGTTTTGTGCCTGGCGATCGACATGTTCTACTTGGAACTAAAAAAGGAAATCTTATAAT
CGTTGACATTGTAGTAGGTGAAATAATAGAAACAATTCAAGCACATGAGAAAGAATTATG
GAGTGTAAGTCTCGCACCAAATTTAAGAAGTTGTGTAACAGGTGGTGGTGATAGTACAGT
AAAATTTTGGTCATTTGAACTTATTCCTGATCCTAATAATGAAGCAAGCAAAGTTCTCTC
TTTAATTCATAAAAATACTTTAGAACTCGAAGAAAATGTTCTCTTTGCTAAAATCACACC
AGATAACAAATATATTGCCGTTGCATTATTAGATTCAACAGTCAAAATTTTCTTTATGGA
TACATTCAAATTCTTTTTATCACTCTATGGTCATAAACTGCCAGTTTTGTGTTTTGACGT
ATGTTATGATAATACATTGATAGCAACAGGCTCAGCTGACAGAAATGTAAAAATTTGGGG
TATGGATTTTGGTGACGTTCATAGGTCACTTTTTGCACATGACGATTCAGTAATGGCTCT
TCAATTTATTCCTAAAACACATATGTTTTTTACATGTGGCAAAGATGGAAAGATTAAACA
ATGGGATGCAGATTCATTCAATAAAATTATCACATTGCCAGGGCATATTGGTGAAGCTTA
TGGACTTTGTGTTAGTCCCAATGGTCGTTATCTCGTTACATGTGGTTCTGATCGAACATT
GAGGATATTTGAAAAGAGTGATGAAGTACTTGTATTACAAGATGTCGAAGAGGAAGAAAG
AGAAGAAGCTGAAAATAAAGAACTTGCAACTGGTGAAGAATCGAATGCTCCTGGCTTGCC
TGGACTTAATCTTCCATCGAAAAAGACTGTTGGTGCAGAGAAAGCTGCTGAAAATATAAT
TGAATGTCTTGAATTAAGTAAGAAATTAGATGAAGACATGCCAAAAGAAGTTCCAGTTAT
TATGCAATTCTACGAAGCAAAAACAACAAATGATTATCTGCTCGGAGTGTTTTCAAAAAT
TCGAACAAGTGATTTAGAAGAAGCTTTACTTTTATTACCTTTCTCAAATGTCTGCGAAAT
TCTCGAGCGTTTGCCAAAAATTGCAGATCAACGTGGTGATGAGATTGAGTTAATATGTAA
AGTTACTATGTTTCTATTTCGAGTTCATCATAAGTCAATCGTTTCAAATCAAATTCTTCT
CTCATCAATACAAAAGTTGATTGAACGACTCGAGTCATCTATTGTAGAAATAAGAGATAT
GATTGGTGAAAATATTCATGCATGGAGCCTCTTGCAACGTAGAATTGAGGGTGAAAATAA
AGTCGAATTATTTAAGGATGCCACACGAGCTCGTAAAGTGAAGAATCAAAAACAAAAGAA
AAAAAGAATAGCAAAAAGAGTTCACATGCAAATTACAGCTTAATAATAGCTGTATGTATT
TTTTTGTCAATGAAACATTTAATAATAAAATTGAATTTAATTTCACAAAAAAACATGAAA
CAAATTATT

>g9422.t5 Gene=g9422 Length=808
MFTPHTSAITCLQFDAGGMNLISGSLDTDSVVSDLVDQVGKCRLSGHSAPVTACVFLETY
KNVAVTSSRDMQVKFWNIETQFCFKTLVDNITEIWGLTLLRDETFLVTGSKETALRVYKL
TENKSHTESLELTNSILADDDSISPLRCNFVGLIQRASKGRTLNLISDNQGQILACSGTN
DEIELFYFNSKEEAMKRLSKRLKKLSIKKDTESDTSEISKEITLTDEIRRIGSIKTKDRV
KSIDLILSGTGELRVGVVFSSNIIRHYSINTAQKNPEPLLLHSISQQGHHTECRSICFSS
DNLAIASGSGESLKLWNRNTLSCLRTVETDYILSTCFVPGDRHVLLGTKKGNLIIVDIVV
GEIIETIQAHEKELWSVSLAPNLRSCVTGGGDSTVKFWSFELIPDPNNEASKVLSLIHKN
TLELEENVLFAKITPDNKYIAVALLDSTVKIFFMDTFKFFLSLYGHKLPVLCFDVCYDNT
LIATGSADRNVKIWGMDFGDVHRSLFAHDDSVMALQFIPKTHMFFTCGKDGKIKQWDADS
FNKIITLPGHIGEAYGLCVSPNGRYLVTCGSDRTLRIFEKSDEVLVLQDVEEEEREEAEN
KELATGEESNAPGLPGLNLPSKKTVGAEKAAENIIECLELSKKLDEDMPKEVPVIMQFYE
AKTTNDYLLGVFSKIRTSDLEEALLLLPFSNVCEILERLPKIADQRGDEIELICKVTMFL
FRVHHKSIVSNQILLSSIQKLIERLESSIVEIRDMIGENIHAWSLLQRRIEGENKVELFK
DATRARKVKNQKQKKKRIAKRVHMQITA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g9422.t5 CDD cd00200 WD40 287 579 2.29885E-57
15 g9422.t5 Coils Coil Coil 188 208 -
16 g9422.t5 Coils Coil Coil 587 607 -
14 g9422.t5 Gene3D G3DSA:2.130.10.10 - 1 137 3.2E-20
11 g9422.t5 Gene3D G3DSA:2.130.10.10 - 200 327 3.3E-5
13 g9422.t5 Gene3D G3DSA:2.130.10.10 - 328 523 3.0E-41
12 g9422.t5 Gene3D G3DSA:2.130.10.10 - 524 609 8.1E-14
29 g9422.t5 MobiDBLite mobidb-lite consensus disorder prediction 589 618 -
8 g9422.t5 PANTHER PTHR19853 WD REPEAT CONTAINING PROTEIN 3 WDR3 1 800 1.4E-244
9 g9422.t5 PANTHER PTHR19853:SF0 WD REPEAT-CONTAINING PROTEIN 3 1 800 1.4E-244
5 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 44 77 0.057
7 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 282 317 0.24
3 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 364 399 0.13
2 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 461 494 1.2E-4
6 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 503 537 0.0088
4 g9422.t5 Pfam PF00400 WD domain, G-beta repeat 542 578 1.8E-5
1 g9422.t5 Pfam PF04003 Dip2/Utp12 Family 666 767 1.8E-15
28 g9422.t5 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 64 78 -
31 g9422.t5 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 2 128 17.403
34 g9422.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 44 86 10.676
30 g9422.t5 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 286 588 35.066
32 g9422.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 367 401 11.31
36 g9422.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 463 504 11.678
35 g9422.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 505 546 12.447
33 g9422.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 547 579 9.74
21 g9422.t5 SMART SM00320 WD40_4 1 34 250.0
19 g9422.t5 SMART SM00320 WD40_4 37 77 0.0016
20 g9422.t5 SMART SM00320 WD40_4 80 119 4.3
23 g9422.t5 SMART SM00320 WD40_4 277 317 0.029
24 g9422.t5 SMART SM00320 WD40_4 320 357 10.0
22 g9422.t5 SMART SM00320 WD40_4 360 399 5.8E-5
18 g9422.t5 SMART SM00320 WD40_4 409 453 19.0
27 g9422.t5 SMART SM00320 WD40_4 456 495 1.5E-6
26 g9422.t5 SMART SM00320 WD40_4 498 537 4.0E-6
25 g9422.t5 SMART SM00320 WD40_4 540 579 7.1E-8
10 g9422.t5 SUPERFAMILY SSF50978 WD40 repeat-like 2 584 1.46E-63

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