General information for g10507.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as pre-mRNA 3’ end processing protein WDR33.
Parent gene
- The parent gene g10507 is located on chr_1: 10275861..10277507 (- strand)
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.t6 | TTS | g10507.t6 | 10275776 | 10275776 |
| chr_1 | g10507 | g10507.t6 | isoform | g10507.t6 | 10275861 | 10277507 |
| chr_1 | g10507 | g10507.t6 | exon | g10507.t6.exon1 | 10275861 | 10276012 |
| chr_1 | g10507 | g10507.t6 | cds | g10507.t6.CDS1 | 10275863 | 10276012 |
| chr_1 | g10507 | g10507.t6 | exon | g10507.t6.exon2 | 10276090 | 10276223 |
| chr_1 | g10507 | g10507.t6 | cds | g10507.t6.CDS2 | 10276090 | 10276223 |
| chr_1 | g10507 | g10507.t6 | exon | g10507.t6.exon3 | 10276275 | 10276410 |
| chr_1 | g10507 | g10507.t6 | cds | g10507.t6.CDS3 | 10276275 | 10276410 |
| chr_1 | g10507 | g10507.t6 | exon | g10507.t6.exon4 | 10276477 | 10277507 |
| chr_1 | g10507 | g10507.t6 | cds | g10507.t6.CDS4 | 10276477 | 10276695 |
| chr_1 | g10507 | g10507.t6 | TSS | g10507.t6 | NA | NA |
Sequences
>g10507.t6 Gene=g10507 Length=1453
TCTAAAACGAAAGAAAATATTTTTTTAGTTTCTTCACAAGACATGTTATGCATGAAATCA
TTGATATACAAAAAGCATCAACTTTCTTTTCTATGTTGATGATTTTAACCTCAATTTCAA
AACAATAAATTCTAGGTACACAATTTTTAATTTTGTAAATAGTATAAATAAATTTGAATT
TGATTTATATTTTTATGCAACATACAATTTTAAAAAGCATTATTTTATATCAAAGTTGTG
AAATATAGACTAAATCAATTCTAAATTCGTGAAAATTATTTTTTTTGTGGACGAAAAAAA
TTTGATGCTTTTATATCGAATTTTTTGGGAATTAGATAAATAAATGACTGAATTTTGCCG
ACCAGTTGTTTGAACTTTATTTTTATCACTATTTTAGGTCACTTTGAATCTATTTTACTG
TGTTTTTTAATAATTTTTTACTTACTTTTGCACGCCTGCTCAATAAAAGATGCGAAAAAG
AAAGAGTCAACTTTTTGCGTCAAAAAATTTGTTGTTTCGCATCTTTTTGAAAAGAAATTT
TTTCCATATTGACGCGCGGAAGTATTTTCTGGCAAACAATAATTTTTTATTTTTAATAAT
TTCATTAGAAATAATAAATCGATATGAATAGAAGTGTATAAACAATTAAATATAGACGCT
ATTGGGCATAAACAAAGAATTATTTGCTACGAATTAGTTCGTGTTTGTGATAATTATTGA
ATTTTTAAAGTGGACGCATTTTAGGATTGAATTGAGAAAAAATTATAAATCAACAATTTA
ACAAAGATATACGCAAGCATTAGAAAGCAATTATGGAATTTCCACCACCAGATTTACCAC
CACCATCTTTTCAACCGCCTCAATTTCAACCCAGACCATACAATCCGAATTTTCATCAAC
AACATAGGCCCTATTACAATAAATATAAGCATGGTCCTCAAATTCAAGATGACTTTGACG
GTAAGAGATTGCGTAAAAGTGTTATGCGAAAGACTGTCGATTATAATGCTTCAATTGTGA
GAGCCTTACAGAATCGGGTTTGGCAGAGAGATCATATTGATCGAAGAGCGCTGCAACCTG
AAAATAGTTACATTCCTGATCTCATGCCGCCTATGAGCTATCTTGACAATCCTAGTAATT
CAATTACTACGCGTTTTGTTAAAACTGCTACAAATAAAATGAGATGTCCTGTTTTCACAC
TTGCTTGGACGCCTGAAGGTAGACGCTTGATTACAGGAGCAAGTTCTGGTGAATTCACTC
TTTGGAATGGATTAACTTTTAATTTTGAAACAATTCTTCAAGCACATAGTACATCAGTGA
GGTCCATGGTGTGGTCTCATAATGACAATTGGATGGTAACAGGTGATCATAACGGTTATG
TTAAATATTGGCAATCAAACATGAACAACGTAAAGCAGTTTCAAGCACATAAGGAACCAA
TTAGAGGACTAAG
>g10507.t6 Gene=g10507 Length=213
MEFPPPDLPPPSFQPPQFQPRPYNPNFHQQHRPYYNKYKHGPQIQDDFDGKRLRKSVMRK
TVDYNASIVRALQNRVWQRDHIDRRALQPENSYIPDLMPPMSYLDNPSNSITTRFVKTAT
NKMRCPVFTLAWTPEGRRLITGASSGEFTLWNGLTFNFETILQAHSTSVRSMVWSHNDNW
MVTGDHNGYVKYWQSNMNNVKQFQAHKEPIRGL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10507.t6 | Gene3D | G3DSA:2.130.10.10 | - | 104 | 213 | 8.5E-18 |
| 6 | g10507.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 7 | g10507.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - |
| 2 | g10507.t6 | PANTHER | PTHR22836 | WD40 REPEAT PROTEIN | 18 | 213 | 3.8E-96 |
| 1 | g10507.t6 | Pfam | PF00400 | WD domain, G-beta repeat | 160 | 193 | 1.3E-4 |
| 9 | g10507.t6 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 120 | 203 | 16.006 |
| 11 | g10507.t6 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 120 | 152 | 9.038 |
| 10 | g10507.t6 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 162 | 194 | 11.411 |
| 4 | g10507.t6 | SMART | SM00320 | WD40_4 | 112 | 152 | 0.41 |
| 5 | g10507.t6 | SMART | SM00320 | WD40_4 | 155 | 194 | 1.6E-5 |
| 3 | g10507.t6 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 73 | 213 | 2.29E-20 |
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
- This transcript has been annotated with K15542 (polyadenylation factor subunit 2)
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.
