Gene loci information

Transcript annotation

  • This transcript has been annotated as WD repeat-containing protein 36.

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_3 g793 g793.t1 TTS g793.t1 6060693 6060693
chr_3 g793 g793.t1 isoform g793.t1 6060748 6063516
chr_3 g793 g793.t1 exon g793.t1.exon1 6060748 6062363
chr_3 g793 g793.t1 cds g793.t1.CDS1 6060748 6062363
chr_3 g793 g793.t1 exon g793.t1.exon2 6062421 6063516
chr_3 g793 g793.t1 cds g793.t1.CDS2 6062421 6063516
chr_3 g793 g793.t1 TSS g793.t1 6063538 6063538

Sequences

>g793.t1 Gene=g793 Length=2712
ATGAGTCGAATTTTTCAACAAAATCGCGCTTTAGGCTACGTTTCTAATCAAATACCAGCA
ACAGTTCGATATGTAGCTGGTCGAAAAGAGAATTGTGTAACAACGTGCGTCGGTAAATCA
TTTCAAACATTCTCATGCAGTCATTTTCGGCTTTTGACTGTTTCTGGTCTTCATCCAGAT
GATATTTCGTGTTTAGCAAGTGATAAGTATCTCATTTATTCAGCATGTGGATCAATTATC
TACGGTTGGAGACGAGGAAATGAAATTAAACACAAGTACATTGGTCACAATGCGAAAGTT
ACTCATTTACTTCCATTCGGTCGTCATTTGATTTCTGTTGATGAAGAGAGCTTGCTGAAA
GTATGGGATAGAATGACAGAGTCAATCTTCATTGAAATTCCATTTCAAAATGACTCTTTC
AAAATCTCTTGTGTCATGCATCCGTTAACTTATATCAATAAAATTTTGATTGGAAGTGAA
CAAGGAGGTTTACAAATTTGGAATATTCGTCATGGAAAATTGATTCATGCATTTTGTGGA
TTTAACAGTAAAATTAATATTCTTGAGCAATCTCCAGCAATTGATGTGATTGGCGTTGGT
TTAGCAAATGGAAAAATAATTTTACTTAATCTCAAAGTTGATCGAGTTTTAATGGAATTT
ACACAAGAATGGGGAATAGTAACAGGAATATCTTTCAGAACTGATGGTCTAACAATGATG
GCTACTTCAAGTAATGATGGACAAATTGCATTTTGGGATTTAGAAGAGAAAAAAGTTATA
AGCACTCTTACTGCACATCATGATTGCATCAATACACTCAAATTTATGCCAAATGAGCCA
CTTTTGCTAACTACCTCAGAAGACAATTCTTTAAAGTTTTGGATTTTTGATAAACTTGAT
GGCACACCTCGTTTATTGCGCTATCGTGAAGGACATTCGGCATCTCCTCTCTCAATTCGT
TATCATGGTTTAAAAGGCGATTGCATTTTATCAGCAGGAGAAGATTCATCTTTAAGAATA
TTTAGCACAATATCAGAAACATTAAATGTCAGTTTAGGAAGAGCAAGTTACAATAGAAAG
GCATCTAAGAAACTTTCCAAATTACAAGATGATTATCGAATTATGCCACCAATTAGCAGT
TTTACATCTGAGACAACTCGTGAAAAACATTGGGATAGTATTGTTGCAATTCATAGAGAT
CTTGTTGAGGCAACAACATGGTCTTTTGATAAAAGAAAAATGGGTGAATTAAAGCTTATG
CCTGAAAGATTTAAAGAAAATAAACGTAAAGATTTCAAGACTTTTGCAACATGTTTAAAC
ATGACACACTGCGGCAATTTTGTAATAATTGGCTATTCTTCTGGCGAAGTTGAGAGATTT
AATGTTCAATCAGGCATACATCGTGCTAATTATGGAAATCCTGCTCATACTAATGATGTT
CGTGGTGTTTGGTCAGATAATTTAAATCAAGTTGTAATAAGCGGTGGTGTCGATTGTAAA
CTCAAATTTTGGAATTTCAAGACAAAAGAAAGCAACAATGCATTTGGAGTGATGAAAATG
CAAGACAGTATTTTATTTATTCGTGGTCATCGTGAAAGTTCAATGCTATGTGTCGTTCTT
GAAGATTTCACCATTTTAGTAATTGATTATGATACGAAAAATATAGTGAGAAAATTCATA
GGACATACAGCTCCAATTACTGATGCATGCTTCAGTCCTGATAGTCGTTGGCTCATTACT
TCAAGTATGGATTGTACAATAAAAACTTGGGATATACCATCATCATATTTAATTGATCAA
TTCAAAATGTCACAGCCATGTATTTCTCTAGCAATGTCACCAAGTGGAGATTTTCTAGCA
ACAGCACATGTAAATTTCCTTGGAATATATTTGTGGGCTAACAAGAGTTTATATGAACAC
ATTTCACTTCGATCAATTGATCCTACAAGTGAAGCAAAAGAAATGGAATTACCTAACATG
ATGAGTTATGAACAAAAGTATGATATAATTGACAGATTGAACCTCATTAAAATTGAAAAA
GAAGAGGAGGAAGAAGAAGGAGAATATATTAATTTGGATTATAAGAGTCCAGCTCAAATT
GATGATAAATTAATAACAATGTCAAAACTTTCAGAAGCAAAATGGAAAAATCTTCTGTCT
CTTGACATTATCAAAAAGCGAAATAAACCGAAAGAGGCATTTAAGAAAGCAAAACAAGCA
CCATTCTTCCTGCCAACTGTAGCAGGTCTGGAATTTGCATTTGATATTGAAAATAATACA
CAAGACGAAGATCATTCACGTTTGAAGACTGCTTCAGTAGTAGAAAATTTAACAACATTT
GGAATAATTTTAAAGAAATCATACGAAACAAATGACTATTCAAATTCAATCAGTCATTTA
ATGACATTAAATCCATCATTAATCGACTATGAAATAAGATCATTAGCCCCGTTAGGTGGT
GGATCAATAAATTTGATGGAAAAATTTCTAGACATGATAATTGAAATGTTGAATACAAAT
ATAAATTTTGAGTTAGCTCAATCATATTTGGCATTATTTTTAAAATCTCATGATGAAGTT
ATATGTGAAAATCGTGCATTGATCGAGAAAATTGAAGAAGTTGAAATAGCTCAAAATAAA
GGTTGGTCAGCAATAGACGAAAAACTTCTTTATGGCATCGGAGTTGTCAGTAATTTAAGA
AACTATTGTTAA

>g793.t1 Gene=g793 Length=903
MSRIFQQNRALGYVSNQIPATVRYVAGRKENCVTTCVGKSFQTFSCSHFRLLTVSGLHPD
DISCLASDKYLIYSACGSIIYGWRRGNEIKHKYIGHNAKVTHLLPFGRHLISVDEESLLK
VWDRMTESIFIEIPFQNDSFKISCVMHPLTYINKILIGSEQGGLQIWNIRHGKLIHAFCG
FNSKINILEQSPAIDVIGVGLANGKIILLNLKVDRVLMEFTQEWGIVTGISFRTDGLTMM
ATSSNDGQIAFWDLEEKKVISTLTAHHDCINTLKFMPNEPLLLTTSEDNSLKFWIFDKLD
GTPRLLRYREGHSASPLSIRYHGLKGDCILSAGEDSSLRIFSTISETLNVSLGRASYNRK
ASKKLSKLQDDYRIMPPISSFTSETTREKHWDSIVAIHRDLVEATTWSFDKRKMGELKLM
PERFKENKRKDFKTFATCLNMTHCGNFVIIGYSSGEVERFNVQSGIHRANYGNPAHTNDV
RGVWSDNLNQVVISGGVDCKLKFWNFKTKESNNAFGVMKMQDSILFIRGHRESSMLCVVL
EDFTILVIDYDTKNIVRKFIGHTAPITDACFSPDSRWLITSSMDCTIKTWDIPSSYLIDQ
FKMSQPCISLAMSPSGDFLATAHVNFLGIYLWANKSLYEHISLRSIDPTSEAKEMELPNM
MSYEQKYDIIDRLNLIKIEKEEEEEEGEYINLDYKSPAQIDDKLITMSKLSEAKWKNLLS
LDIIKKRNKPKEAFKKAKQAPFFLPTVAGLEFAFDIENNTQDEDHSRLKTASVVENLTTF
GIILKKSYETNDYSNSISHLMTLNPSLIDYEIRSLAPLGGGSINLMEKFLDMIIEMLNTN
INFELAQSYLALFLKSHDEVICENRALIEKIEEVEIAQNKGWSAIDEKLLYGIGVVSNLR
NYC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g793.t1 Gene3D G3DSA:2.130.10.10 - 3 635 5.0E-234
19 g793.t1 Gene3D G3DSA:2.130.10.10 - 14 312 5.0E-234
5 g793.t1 PANTHER PTHR22840 WD REPEAT-CONTAINING PROTEIN 36 2 901 1.3E-296
4 g793.t1 Pfam PF12894 Anaphase-promoting complex subunit 4 WD40 domain 191 276 3.8E-6
3 g793.t1 Pfam PF00400 WD domain, G-beta repeat 475 505 0.068
2 g793.t1 Pfam PF00400 WD domain, G-beta repeat 555 591 7.4E-9
1 g793.t1 Pfam PF04192 Utp21 specific WD40 associated putative domain 680 900 2.2E-63
18 g793.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 240 254 -
16 g793.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 492 506 -
17 g793.t1 ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 578 592 -
21 g793.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 93 600 28.212
22 g793.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 220 262 9.673
24 g793.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 263 294 12.514
23 g793.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 473 514 9.105
25 g793.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 559 600 14.151
14 g793.t1 SMART SM00320 WD40_4 86 123 0.89
8 g793.t1 SMART SM00320 WD40_4 210 253 0.039
12 g793.t1 SMART SM00320 WD40_4 256 295 3.1E-5
10 g793.t1 SMART SM00320 WD40_4 302 342 0.083
11 g793.t1 SMART SM00320 WD40_4 464 505 0.38
15 g793.t1 SMART SM00320 WD40_4 511 549 350.0
13 g793.t1 SMART SM00320 WD40_4 552 591 8.7E-11
9 g793.t1 SMART SM00320 WD40_4 594 633 10.0
6 g793.t1 SUPERFAMILY SSF50978 WD40 repeat-like 33 236 3.92E-17
7 g793.t1 SUPERFAMILY SSF50978 WD40 repeat-like 173 633 7.63E-55

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:0032040 small-subunit processome CC
GO:0005515 protein binding MF
GO:0006364 rRNA processing BP

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