Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytidine deaminase.

Parent gene

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 g13451 g13451.t7 TSS g13451.t7 30216476 30216476
chr_1 g13451 g13451.t7 isoform g13451.t7 30216529 30217230
chr_1 g13451 g13451.t7 exon g13451.t7.exon1 30216529 30216580
chr_1 g13451 g13451.t7 cds g13451.t7.CDS1 30216529 30216580
chr_1 g13451 g13451.t7 exon g13451.t7.exon2 30216641 30216697
chr_1 g13451 g13451.t7 cds g13451.t7.CDS2 30216641 30216697
chr_1 g13451 g13451.t7 exon g13451.t7.exon3 30216759 30216821
chr_1 g13451 g13451.t7 cds g13451.t7.CDS3 30216759 30216821
chr_1 g13451 g13451.t7 exon g13451.t7.exon4 30216878 30217018
chr_1 g13451 g13451.t7 cds g13451.t7.CDS4 30216878 30217018
chr_1 g13451 g13451.t7 exon g13451.t7.exon5 30217084 30217230
chr_1 g13451 g13451.t7 cds g13451.t7.CDS5 30217084 30217127
chr_1 g13451 g13451.t7 TTS g13451.t7 30217346 30217346

Sequences

>g13451.t7 Gene=g13451 Length=460
ATGGAAGTCAATGGCACTAATCATCAAAAGATCGTGAATATTGACGATTTAGACGTTGGT
GATCAAGATTTGATAAGAAAAGCAGTTGAGGCGAGGAATTTTGCATACTGTCCATATTCA
AATTTTGCTGTGGGGAGTGCATTGAGAACTAACACTGGTGAAATTTTTACAGGATGTAAT
GTTGAGAATGTTGCCCATTCTCCTGGAGTTTGTGCCGAAAGAACAGCTATTGTAAAAGCT
GTTAGTGAAGGATTTACAAAATTTGATGCAATTGCAGTAGTTGCATATTTAGAAAATGAT
TTTTGCACACCATGTATGCAGACAAGCTCTTTCGGAATTTGCATCACCGGATATTAAAGT
GTTTGTTGCTAAACCAGTTGCTATTAGAGTATTGTGTACTTCAGTTCAAGAACTTCTTCC
ATATCGTTTTTCTCCTGATAAATTGCAAAAACAATTGTAA

>g13451.t7 Gene=g13451 Length=118
MEVNGTNHQKIVNIDDLDVGDQDLIRKAVEARNFAYCPYSNFAVGSALRTNTGEIFTGCN
VENVAHSPGVCAERTAIVKAVSEGFTKFDAIAVVAYLENDFCTPCMQTSSFGICITGY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13451.t7 CDD cd01283 cytidine_deaminase 25 105 0.000
5 g13451.t7 Gene3D G3DSA:3.40.140.10 Cytidine Deaminase 8 110 0.000
2 g13451.t7 PANTHER PTHR11644:SF24 CYTIDINE DEAMINASE 12 107 0.000
3 g13451.t7 PANTHER PTHR11644 CYTIDINE DEAMINASE 12 107 0.000
1 g13451.t7 Pfam PF08211 Cytidine and deoxycytidylate deaminase zinc-binding region 16 99 0.000
6 g13451.t7 ProSiteProfiles PS51747 Cytidine and deoxycytidylate deaminases domain profile. 19 118 21.872
4 g13451.t7 SUPERFAMILY SSF53927 Cytidine deaminase-like 19 106 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:0009972 cytidine deamination BP
GO:0004126 cytidine deaminase activity MF
GO:0008270 zinc ion binding MF
GO:0003824 catalytic activity 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. There were no conditions that were differentially expressed