General information for g5983.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Anaphase-promoting complex subunit 10.
Parent gene
- The parent gene g5983 is located on chr_2: 13164477..13166412 (+ 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 | g5983 | g5983.t1 | TSS | g5983.t1 | 13163798 | 13163798 |
| chr_2 | g5983 | g5983.t1 | isoform | g5983.t1 | 13163845 | 13164477 |
| chr_2 | g5983 | g5983.t1 | exon | g5983.t1.exon1 | 13163845 | 13163962 |
| chr_2 | g5983 | g5983.t1 | cds | g5983.t1.CDS1 | 13163845 | 13163962 |
| chr_2 | g5983 | g5983.t1 | exon | g5983.t1.exon2 | 13164026 | 13164477 |
| chr_2 | g5983 | g5983.t1 | cds | g5983.t1.CDS2 | 13164026 | 13164477 |
| chr_2 | g5983 | g5983.t1 | TTS | g5983.t1 | 13164505 | 13164505 |
Sequences
>g5983.t1 Gene=g5983 Length=570
ATGGCTTCAAGAACACCGGAACATAGTGAAAATCAATGTCCATTTCATGCAGAACGAACA
GGAGAAGTGCGAGAAGTTGGTGGACATGCAGTTTGGTCTCTTTCATCATGCAAACCAGGA
TTTGGTGTTGAACAATTAAGAGATAATTCTATGGAGACTTATTGGCAATCAGATGGACAA
CTTCCTCATCTTGTTAACATTCAATTTGACAGAAAAACCACAATAAGTCAAATATACATT
TACAGTGATTATAAATTAGATGAAAGTTATACACCATCTCGCATTTCAATTCGTTGTGGT
ACACATTTCAATGATTTAAATGAAATAGAAATTATTGATCTTTGTGAACCATCAGGCTGG
ATAGTTGTTCCAATTAAAAATATTCGTGATAAACCAATTAGAACATTTATGGTTCAAATA
GCAGTGATTAGTAACCATCAAAATGGAAGAGATACACATATGAGACAAATTAAAATTCAC
TCACCTATAGAAACCAAAAAAAATCTTGCGCTTGAGAATTTCAATGAATTTTCGACTGTT
GATTTTCAAAAATATGCAACGATTCGATAA
>g5983.t1 Gene=g5983 Length=189
MASRTPEHSENQCPFHAERTGEVREVGGHAVWSLSSCKPGFGVEQLRDNSMETYWQSDGQ
LPHLVNIQFDRKTTISQIYIYSDYKLDESYTPSRISIRCGTHFNDLNEIEIIDLCEPSGW
IVVPIKNIRDKPIRTFMVQIAVISNHQNGRDTHMRQIKIHSPIETKKNLALENFNEFSTV
DFQKYATIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5983.t1 | CDD | cd08366 | APC10 | 24 | 161 | 0.000 |
| 5 | g5983.t1 | Gene3D | G3DSA:2.60.120.260 | - | 4 | 172 | 0.000 |
| 2 | g5983.t1 | PANTHER | PTHR12936 | ANAPHASE-PROMOTING COMPLEX 10 | 13 | 189 | 0.000 |
| 3 | g5983.t1 | PANTHER | PTHR12936:SF3 | ANAPHASE-PROMOTING COMPLEX SUBUNIT 10 | 13 | 189 | 0.000 |
| 6 | g5983.t1 | PIRSF | PIRSF028841 | APC10 | 1 | 189 | 0.000 |
| 1 | g5983.t1 | Pfam | PF03256 | Anaphase-promoting complex, subunit 10 (APC10) | 16 | 186 | 0.000 |
| 9 | g5983.t1 | ProSiteProfiles | PS51284 | DOC domain profile. | 2 | 186 | 35.013 |
| 8 | g5983.t1 | SMART | SM01337 | APC10_2 | 23 | 188 | 0.000 |
| 4 | g5983.t1 | SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 12 | 161 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5983/g5983.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5983.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0031145 | anaphase-promoting complex-dependent catabolic process | BP |
| GO:0005680 | anaphase-promoting complex | CC |
KEGG
Orthology
- This transcript has been annotated with K03357 (anaphase-promoting complex subunit 10)
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.
