General information for g8648.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Anaphase-promoting complex subunit 2.
Parent gene
- The parent gene g8648 is located on chr_2: 32084438..32085193 (+ 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_2 | g8648 | g8648.t3 | isoform | g8648.t3 | 32083750 | 32084542 |
| chr_2 | g8648 | g8648.t3 | exon | g8648.t3.exon1 | 32083750 | 32084542 |
| chr_2 | g8648 | g8648.t3 | cds | g8648.t3.CDS1 | 32083806 | 32084438 |
| chr_2 | g8648 | g8648.t3 | TTS | g8648.t3 | 32084553 | 32084553 |
| chr_2 | g8648 | g8648.t3 | TSS | g8648.t3 | NA | NA |
Sequences
>g8648.t3 Gene=g8648 Length=793
CTGTCTCTGCTCTCATTGTATCATCTCAATTTTGGCCTACTTTCAAAAAAGAAACGATGG
AGTTGCCCGATGAGATGAACAAGATTTTTGAAAGATACAAAAAATCTTATGAAGAATATA
AAGGAAATCGAACATTATGTTGGTCAGCGTTAAACGGAAAAGTCAATATTGAAATTGAGA
TCAACGATAAAAAGTTAGATTTAACAGTAACTCCTGCCCAAGCAACCATCATTTGGCATT
TTCAAAATCAAAAAGAATGGCAATTAGATAGCTTGAGTACAGTCATTAATATGCCTCCAA
GTGTACTAAGAAGAAGAATTGGATTTTGGCAGTTACAAGGGTTAATTCGTGAAACTAAAG
AGAATTTATTTGTACTATGTGATGAGAAACAGCAAGATTGTGAAATGGAGACACAAGTGA
ATGTTGTATTAGATGAGGAAGAAACAATGGTTTCTGCAAATGATCAAAGAGAAGAAGAAT
TGCAAGTCTTTTGGTCATATATTCTTGGAATGCTGACTAATTTAGACTCAATGCCACTCG
AGAGAATTCATCAAATGTTGAAGCTTTTTGCCTCACAAGGTCCAGGTTTTGAATTTTCGC
AAGATGAACTGAAGAGTTTTCTGCAAAGGAAAGTTAGAGAGCACAAGTTGGTTTATGCAC
TTGGTGTTTATCAGTTACCAAAGAATTAAATCAGATTGTTAGTTTCTTAACCTTTCGTTT
TTGGCGCGAATGAGTGAGTTTATTAAATATGAGAATGTTTATAATGAAATAATAAAAAAA
CTTAATTTCTATT
>g8648.t3 Gene=g8648 Length=210
MELPDEMNKIFERYKKSYEEYKGNRTLCWSALNGKVNIEIEINDKKLDLTVTPAQATIIW
HFQNQKEWQLDSLSTVINMPPSVLRRRIGFWQLQGLIRETKENLFVLCDEKQQDCEMETQ
VNVVLDEEETMVSANDQREEELQVFWSYILGMLTNLDSMPLERIHQMLKLFASQGPGFEF
SQDELKSFLQRKVREHKLVYALGVYQLPKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8648.t3 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 125 | 210 | 0.000 |
| 3 | g8648.t3 | PANTHER | PTHR45957:SF1 | ANAPHASE-PROMOTING COMPLEX SUBUNIT 2 | 1 | 209 | 0.000 |
| 4 | g8648.t3 | PANTHER | PTHR45957 | ANAPHASE-PROMOTING COMPLEX SUBUNIT 2 | 1 | 209 | 0.000 |
| 2 | g8648.t3 | Pfam | PF00888 | Cullin family | 2 | 119 | 0.000 |
| 1 | g8648.t3 | Pfam | PF08672 | Anaphase promoting complex (APC) subunit 2 | 148 | 207 | 0.000 |
| 9 | g8648.t3 | ProSiteProfiles | PS50069 | Cullin family profile. | 1 | 92 | 13.165 |
| 7 | g8648.t3 | SMART | SM01013 | APC2_2 | 148 | 207 | 0.000 |
| 6 | g8648.t3 | SUPERFAMILY | SSF75632 | Cullin homology domain | 2 | 110 | 0.000 |
| 5 | g8648.t3 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 137 | 208 | 0.000 |
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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0031625 | ubiquitin protein ligase 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.
