General information for g13262.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Deoxycytidylate deaminase.
Parent gene
- The parent gene g13262 is located on chr_1: 28851444..28852076 (+ 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 | g13262 | g13262.t3 | TSS | g13262.t3 | 28851250 | 28851250 |
| chr_1 | g13262 | g13262.t3 | isoform | g13262.t3 | 28851444 | 28852076 |
| chr_1 | g13262 | g13262.t3 | exon | g13262.t3.exon1 | 28851444 | 28852076 |
| chr_1 | g13262 | g13262.t3 | cds | g13262.t3.CDS1 | 28851461 | 28851922 |
| chr_1 | g13262 | g13262.t3 | TTS | g13262.t3 | 28852036 | 28852036 |
Sequences
>g13262.t3 Gene=g13262 Length=633
ATTGGGAAGATTATTTCATGGGAATAGCATTTTTAGCAGCTCAGAGGAGTAAAGATCCAG
CAACACAAGTAGGAGCTTGTATTGTAAATGATGAGATGAAAATTGTTGCAATAGGATATA
ATGGTTTTCCCATAAATTGTTCTGATGATAAATTTCCATGGACAAAAGAATCTAATGATC
CATTAGAAAATAAATACATGTATGTATGTCATGCTGAAGTAAATGCTATTCTCAACAAAA
ATAGCTTCGATGTGAAAGGTTGCTCGCTTTATGTGGCTCTCTTTCCTTGCAACGAATGTG
CAAAAATCATCATTCAATCAAGAATCAAAGAAATTGTTTATTTATCAGATAAACATGCTG
ACAAACCACAAACTAAAGCTTCAAAGATGATGCTTGACTCTGCAGGTATAAAATACAGGC
AGTATAAACCTAAACACTCGAAAATTGTTATTGATTTTGATAAGATTAACGAAAATTGAC
TTTATTATGTATTCAGAAAAACTTTATAATGACGATAAAATTATTGAAGCAAAAACCAAT
ACAAAAGCTGATTGCTTAATATTATAACTTGATGATTTTTCATCAATTAATGGCAAATAT
GACCAATCAATTTTGTTTGTCTTTACAATTTCA
>g13262.t3 Gene=g13262 Length=153
MGIAFLAAQRSKDPATQVGACIVNDEMKIVAIGYNGFPINCSDDKFPWTKESNDPLENKY
MYVCHAEVNAILNKNSFDVKGCSLYVALFPCNECAKIIIQSRIKEIVYLSDKHADKPQTK
ASKMMLDSAGIKYRQYKPKHSKIVIDFDKINEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13262.t3 | CDD | cd01286 | deoxycytidylate_deaminase | 1 | 127 | 2.10037E-51 |
| 4 | g13262.t3 | Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase | 1 | 153 | 4.0E-58 |
| 2 | g13262.t3 | PANTHER | PTHR11086 | DEOXYCYTIDYLATE DEAMINASE-RELATED | 1 | 152 | 2.8E-73 |
| 5 | g13262.t3 | PIRSF | PIRSF006019 | dCMP_deaminase | 1 | 146 | 6.3E-45 |
| 1 | g13262.t3 | Pfam | PF00383 | Cytidine and deoxycytidylate deaminase zinc-binding region | 1 | 109 | 1.7E-24 |
| 7 | g13262.t3 | ProSitePatterns | PS00903 | Cytidine and deoxycytidylate deaminases zinc-binding region signature. | 65 | 98 | - |
| 8 | g13262.t3 | ProSiteProfiles | PS51747 | Cytidine and deoxycytidylate deaminases domain profile. | 1 | 125 | 21.89 |
| 3 | g13262.t3 | SUPERFAMILY | SSF53927 | Cytidine deaminase-like | 1 | 137 | 2.48E-33 |
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:0004132 | dCMP deaminase activity | MF |
| GO:0016787 | hydrolase activity | MF |
| GO:0006220 | pyrimidine nucleotide metabolic process | BP |
| GO:0008270 | zinc ion binding | MF |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01493 (dCMP deaminase)
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.
