Gene loci information

Transcript annotation

  • This transcript has been annotated as pre-mRNA 3’ end processing protein WDR33.

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 g10507 g10507.t5 isoform g10507.t5 10275530 10276695
chr_1 g10507 g10507.t5 exon g10507.t5.exon1 10275530 10275996
chr_1 g10507 g10507.t5 cds g10507.t5.CDS1 10275857 10275996
chr_1 g10507 g10507.t5 exon g10507.t5.exon2 10276086 10276223
chr_1 g10507 g10507.t5 cds g10507.t5.CDS2 10276086 10276223
chr_1 g10507 g10507.t5 exon g10507.t5.exon3 10276275 10276410
chr_1 g10507 g10507.t5 cds g10507.t5.CDS3 10276275 10276410
chr_1 g10507 g10507.t5 exon g10507.t5.exon4 10276477 10276695
chr_1 g10507 g10507.t5 cds g10507.t5.CDS4 10276477 10276695
chr_1 g10507 g10507.t5 TSS g10507.t5 10276960 10276960
chr_1 g10507 g10507.t5 TTS g10507.t5 NA NA

Sequences

>g10507.t5 Gene=g10507 Length=960
ATGGAATTTCCACCACCAGATTTACCACCACCATCTTTTCAACCGCCTCAATTTCAACCC
AGACCATACAATCCGAATTTTCATCAACAACATAGGCCCTATTACAATAAATATAAGCAT
GGTCCTCAAATTCAAGATGACTTTGACGGTAAGAGATTGCGTAAAAGTGTTATGCGAAAG
ACTGTCGATTATAATGCTTCAATTGTGAGAGCCTTACAGAATCGGGTTTGGCAGAGAGAT
CATATTGATCGAAGAGCGCTGCAACCTGAAAATAGTTACATTCCTGATCTCATGCCGCCT
ATGAGCTATCTTGACAATCCTAGTAATTCAATTACTACGCGTTTTGTTAAAACTGCTACA
AATAAAATGAGATGTCCTGTTTTCACACTTGCTTGGACGCCTGAAGGTAGACGCTTGATT
ACAGGAGCAAGTTCTGGTGAATTCACTCTTTGGAATGGATTAACTTTTAATTTTGAAACA
ATTCTTCAAGTATTGAGGTCCATGGTGTGGTCTCATAATGACAATTGGATGGTAACAGGT
GATCATAACGGTTATGTTAAATATTGGCAATCAAACATGAACAACGTAAAGCAGTTTCAA
GCACATAAGGAACCAATTAGAGGACTAAGGTAGATTCAAGCTTTTCGTTTTACTATTTCT
GACCAAATAAAGAAATTACACACTTTACACTTTTCTCTTTAAAAGATTTTTCCCAAAAAA
TAAAATAATAAAGACAAATTCCCTAAAATCCCCTTAATAAAAGATTCTCTTTAAAGATCT
GTGCAGTAAAATGAAATAAAGATTTAATTAGAAAAAATGCACATGATTTCATATGACGCA
ATATGCAAAATAAATTTTAATAAAAGTTATCTACCTAATATATATATATATATATTTAAC
AATCTGTGATATACTTTGTGATATTTATGAGTGACAATAAAGGCTTTGTCCGTGAAAAGA

>g10507.t5 Gene=g10507 Length=210
MEFPPPDLPPPSFQPPQFQPRPYNPNFHQQHRPYYNKYKHGPQIQDDFDGKRLRKSVMRK
TVDYNASIVRALQNRVWQRDHIDRRALQPENSYIPDLMPPMSYLDNPSNSITTRFVKTAT
NKMRCPVFTLAWTPEGRRLITGASSGEFTLWNGLTFNFETILQVLRSMVWSHNDNWMVTG
DHNGYVKYWQSNMNNVKQFQAHKEPIRGLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10507.t5 Gene3D G3DSA:2.130.10.10 - 104 210 7.0E-13
5 g10507.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 24 -
6 g10507.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
1 g10507.t5 PANTHER PTHR22836 WD40 REPEAT PROTEIN 18 209 2.9E-90
8 g10507.t5 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 120 152 9.038
3 g10507.t5 SMART SM00320 WD40_4 112 152 0.41
4 g10507.t5 SMART SM00320 WD40_4 155 190 0.37
2 g10507.t5 SUPERFAMILY SSF50978 WD40 repeat-like 73 209 1.79E-15

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