General information for g10507.t4
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.t4 | TTS | g10507.t4 | 10273461 | 10273461 |
| chr_1 | g10507 | g10507.t4 | isoform | g10507.t4 | 10274043 | 10275191 |
| chr_1 | g10507 | g10507.t4 | exon | g10507.t4.exon1 | 10274043 | 10274667 |
| chr_1 | g10507 | g10507.t4 | cds | g10507.t4.CDS1 | 10274043 | 10274667 |
| chr_1 | g10507 | g10507.t4 | exon | g10507.t4.exon2 | 10274733 | 10275191 |
| chr_1 | g10507 | g10507.t4 | cds | g10507.t4.CDS2 | 10274733 | 10275100 |
| chr_1 | g10507 | g10507.t4 | TSS | g10507.t4 | NA | NA |
Sequences
>g10507.t4 Gene=g10507 Length=1084
CTTTTGTCCAACGGATGCAAAATTTGCAACATGCAGTGATGATGGAACAGTCAGGATATT
TGATTTTCTTCGTTGTCACGAAGAGCGAGTCATGAGAGGTCACGGTGCTGATGTTAAAAC
AATTCATTGGCATCCTCAAAAATCAATTGTAGCATCAGGTAGTAAAGATAATCAACAGCC
GATCAAATTATGGGATCCAAAGAGCGGTACTGCTTTGTGCACTTTGCATGCACATAAATC
CACTGTAATGGATTTGAAATGGAACGATAATGGTAACTGGCTTGTGACGGCATCGCGTGA
TCATCTTTTGAAACTGTTTGATATAAGAAATTTAAAAGAGGAAATGCAAACATTTAGAGG
ACATAAAAAGGAAGCAAGTTCTGTATGTTGGCATCCTATTCATGAGGGACTTTTTGTGTC
AGGTGGATCTGATGGTCAAATTTTGTTTTGGAATGTTGGAACTGATAAGGAAGTTGGAGG
AATTGAAGCAGCTCATGAAAGTATTGTTTGGACACTTGCATGGCATCCAATCGGACACAT
TCTTTGTTCTGGCTCTAACGACCATACAGTTAAATTTTGGACAAGAAATAGACCAGGTGA
TCAAATGAGAGACAAATATAATTTGAATACATTACCAGCTAGTCTTGCTGGTCTCGAAGA
TTATGAAATGGATGAACATATTGTTATTCCTGGAATGGGAATTGCACCAAGTGATGATCA
AGATGAAGATGATGACGATGAAGATGTATATGCTCAATCTCAAATGCCTGGAGATTTGTT
ACAAAAGGATGAAAATTCAGTTAATAGTAATTCAGAAGCTCTCGATAATGGAGTTATTCC
TGGATTGGATCTTGATGGTGGCAAAAATGATAAAAAATTACCTTACAGCAAGCCTATACC
AAAAAATTTCCAAGCTCAATGGAATGTTAATGAAAAGAATGACAAACCATCGCATAATCC
AACAAACATCATAGAATGTATTCAGCATGTGGTTACGAAAATTAACGAAAGATATCCAGG
TCTCATTAAAATCGATAATCTACGATCTGATAGGATAATTGTTTCTGGAAAAGAATTGGA
CATT
>g10507.t4 Gene=g10507 Length=331
MRGHGADVKTIHWHPQKSIVASGSKDNQQPIKLWDPKSGTALCTLHAHKSTVMDLKWNDN
GNWLVTASRDHLLKLFDIRNLKEEMQTFRGHKKEASSVCWHPIHEGLFVSGGSDGQILFW
NVGTDKEVGGIEAAHESIVWTLAWHPIGHILCSGSNDHTVKFWTRNRPGDQMRDKYNLNT
LPASLAGLEDYEMDEHIVIPGMGIAPSDDQDEDDDDEDVYAQSQMPGDLLQKDENSVNSN
SEALDNGVIPGLDLDGGKNDKKLPYSKPIPKNFQAQWNVNEKNDKPSHNPTNIIECIQHV
VTKINERYPGLIKIDNLRSDRIIVSGKELDI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10507.t4 | CDD | cd00200 | WD40 | 1 | 163 | 5.7448E-41 |
| 6 | g10507.t4 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 82 | 6.0E-22 |
| 7 | g10507.t4 | Gene3D | G3DSA:2.130.10.10 | - | 83 | 181 | 3.2E-23 |
| 14 | g10507.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 226 | 248 | - |
| 13 | g10507.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 228 | 245 | - |
| 4 | g10507.t4 | PANTHER | PTHR22836 | WD40 REPEAT PROTEIN | 1 | 291 | 1.4E-123 |
| 3 | g10507.t4 | Pfam | PF00400 | WD domain, G-beta repeat | 42 | 77 | 4.5E-6 |
| 2 | g10507.t4 | Pfam | PF00400 | WD domain, G-beta repeat | 84 | 121 | 0.0015 |
| 1 | g10507.t4 | Pfam | PF00400 | WD domain, G-beta repeat | 134 | 163 | 6.1E-5 |
| 15 | g10507.t4 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 173 | 31.718 |
| 17 | g10507.t4 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 45 | 86 | 12.413 |
| 18 | g10507.t4 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 88 | 130 | 11.544 |
| 16 | g10507.t4 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 132 | 163 | 12.246 |
| 12 | g10507.t4 | SMART | SM00320 | WD40_4 | 1 | 35 | 1.4 |
| 10 | g10507.t4 | SMART | SM00320 | WD40_4 | 38 | 77 | 1.4E-8 |
| 11 | g10507.t4 | SMART | SM00320 | WD40_4 | 81 | 121 | 1.3E-7 |
| 9 | g10507.t4 | SMART | SM00320 | WD40_4 | 124 | 164 | 1.1E-6 |
| 5 | g10507.t4 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 2 | 165 | 4.07E-44 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
