General information for g9276.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cell division cycle protein 20-like protein.
Parent gene
- The parent gene g9276 is located on chr_1: 1394122..1395267 (- 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 | g9276 | g9276.t3 | TTS | g9276.t3 | 1392192 | 1392192 |
| chr_1 | g9276 | g9276.t3 | isoform | g9276.t3 | 1392339 | 1393801 |
| chr_1 | g9276 | g9276.t3 | exon | g9276.t3.exon1 | 1392339 | 1392517 |
| chr_1 | g9276 | g9276.t3 | cds | g9276.t3.CDS1 | 1392339 | 1392517 |
| chr_1 | g9276 | g9276.t3 | exon | g9276.t3.exon2 | 1392575 | 1393287 |
| chr_1 | g9276 | g9276.t3 | cds | g9276.t3.CDS2 | 1392575 | 1393287 |
| chr_1 | g9276 | g9276.t3 | exon | g9276.t3.exon3 | 1393354 | 1393801 |
| chr_1 | g9276 | g9276.t3 | cds | g9276.t3.CDS3 | 1393354 | 1393688 |
| chr_1 | g9276 | g9276.t3 | TSS | g9276.t3 | 1394199 | 1394199 |
Sequences
>g9276.t3 Gene=g9276 Length=1340
GACGAAAAACGCCGACTCCAAACAAAAACTCTTCAAAATCACCTTCAAGATCCAATGGCG
ATCGTTTTATTCCAAATAGAGCTGCAACAAATTTCGAGCTGGGAAATTATTTAATGAAAC
AGCAAGATCGAACTGATAATGGTAGTGAAAGCCAAAAATCGCCAAATGACAAAGTTCGTG
CTCTATCTGAAGCATTACATGGATTAGATATATCAAAGAAACGTATTCTTGCTTTTCAAA
GTAAAGCACCAGCTGCACCTGATTCACATCTAAATCCACTCAAAGTAATTTATAGTGTTA
AAACACCAATGTCATCAAAGAGTGGTACTCGATACATTCCAACAAATCCAGAAAGAATTC
TGGATGCACCTGACATCAGTAATGACTATTATTTAAATCTTCTTGACTGGAGTTCTGATA
ATATTGTGACTGTTGCACTTGGTAAAAGTGTTTATTTATGGAATGCTGGAACTGGAAATA
TCGAAATATTATTTGAAAGTCAAGGACAGGATCATGTATGCTCATTATCATGGATTCAAG
AAGGACAAATTCTTGCTGTTGGATTAAGTAATGGCTTACTTGAGTTATGGGACTGCACAA
AAATGAAGAGACTTCGAGTAATGAATGGACATTCGACTCGTATTGGTTCATTAGCTTGGA
ATTCATGGTTAATTTCGAGTGGTTCGAGAGACGGTACAATCATTCATCATGATGTACGAC
AACGTGAACATCAAATTGGTTTATTACAAGGACACACGCAAGAAGTTTGCGGATTAAAAT
GGTCGCTTGATGCTAAATATTTGGCAAGTGGTGGAAATGATAACTTAGTTAATATTTGGA
CGACTGAAGGAGCTAATGGAGCAGGAACAAGTTCAACACCATTACATCAATTCAATGAAC
ATCAAGCTGCTGTTCGTGCTCTTGCTTGGTGTCCATGGCAGTCAAACACTCTTGCATCCG
GAGGTGGAACAGCTGATAGATGTATTAAATTTTGGAATGTCAATACTGGAGTATGCATGA
ATTCTGTTGACACAAAATCCCAAGTGTGTTCATTATTGTTTTCAAAAACTTATAAGGAAC
TTATATCAGCTCACGGTTTTGCTAACAATCAATTAACGATTTGGAAATATCCTTCAATGA
CACATCAAGTTGATCTCACTGGACATACGGAACGAGTATTACAGCTAGCAATGTCACCTG
ATGGTAGTACAATAATGAGTGCTGGTGCTGACGAAACATTACGTTTATGGAAATGCTTTG
CGGAAGATCCTAATATGAATAAAAAGAAATCTGCAGCTAAAGAAAAGACCAGTTTCTTGC
TTAAACAAAGCATTCGTTAA
>g9276.t3 Gene=g9276 Length=408
MKQQDRTDNGSESQKSPNDKVRALSEALHGLDISKKRILAFQSKAPAAPDSHLNPLKVIY
SVKTPMSSKSGTRYIPTNPERILDAPDISNDYYLNLLDWSSDNIVTVALGKSVYLWNAGT
GNIEILFESQGQDHVCSLSWIQEGQILAVGLSNGLLELWDCTKMKRLRVMNGHSTRIGSL
AWNSWLISSGSRDGTIIHHDVRQREHQIGLLQGHTQEVCGLKWSLDAKYLASGGNDNLVN
IWTTEGANGAGTSSTPLHQFNEHQAAVRALAWCPWQSNTLASGGGTADRCIKFWNVNTGV
CMNSVDTKSQVCSLLFSKTYKELISAHGFANNQLTIWKYPSMTHQVDLTGHTERVLQLAM
SPDGSTIMSAGADETLRLWKCFAEDPNMNKKKSAAKEKTSFLLKQSIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g9276.t3 | CDD | cd00200 | WD40 | 97 | 380 | 3.64696E-41 |
| 8 | g9276.t3 | Gene3D | G3DSA:2.130.10.10 | - | 34 | 383 | 4.3E-127 |
| 18 | g9276.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 19 | g9276.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 15 | - |
| 5 | g9276.t3 | PANTHER | PTHR19918 | CELL DIVISION CYCLE 20 CDC20 FIZZY -RELATED | 9 | 408 | 1.9E-167 |
| 6 | g9276.t3 | PANTHER | PTHR19918:SF3 | CELL DIVISION CYCLE PROTEIN 20 HOMOLOG | 9 | 408 | 1.9E-167 |
| 4 | g9276.t3 | Pfam | PF12894 | Anaphase-promoting complex subunit 4 WD40 domain | 128 | 183 | 2.7E-5 |
| 1 | g9276.t3 | Pfam | PF00400 | WD domain, G-beta repeat | 209 | 242 | 8.5E-5 |
| 3 | g9276.t3 | Pfam | PF00400 | WD domain, G-beta repeat | 255 | 295 | 0.008 |
| 2 | g9276.t3 | Pfam | PF00400 | WD domain, G-beta repeat | 347 | 380 | 2.5E-4 |
| 10 | g9276.t3 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 282 | 296 | - |
| 20 | g9276.t3 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 87 | 389 | 33.063 |
| 22 | g9276.t3 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 211 | 252 | 13.449 |
| 21 | g9276.t3 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 348 | 380 | 14.552 |
| 17 | g9276.t3 | SMART | SM00320 | WD40_4 | 76 | 117 | 51.0 |
| 15 | g9276.t3 | SMART | SM00320 | WD40_4 | 122 | 160 | 0.81 |
| 12 | g9276.t3 | SMART | SM00320 | WD40_4 | 163 | 200 | 0.011 |
| 11 | g9276.t3 | SMART | SM00320 | WD40_4 | 204 | 243 | 1.2E-6 |
| 14 | g9276.t3 | SMART | SM00320 | WD40_4 | 253 | 295 | 3.0E-5 |
| 16 | g9276.t3 | SMART | SM00320 | WD40_4 | 298 | 338 | 150.0 |
| 13 | g9276.t3 | SMART | SM00320 | WD40_4 | 341 | 380 | 5.8E-6 |
| 7 | g9276.t3 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 75 | 385 | 3.55E-61 |
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:1904668 | positive regulation of ubiquitin protein ligase activity | BP |
| GO:0097027 | ubiquitin-protein transferase activator activity | MF |
| GO:0010997 | anaphase-promoting complex binding | MF |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K03363 (cell division cycle 20, cofactor of APC complex)
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.
