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.t16 TSS g13451.t16 30216476 30216476
chr_1 g13451 g13451.t16 isoform g13451.t16 30216529 30217230
chr_1 g13451 g13451.t16 exon g13451.t16.exon1 30216529 30216580
chr_1 g13451 g13451.t16 cds g13451.t16.CDS1 30216529 30216580
chr_1 g13451 g13451.t16 exon g13451.t16.exon2 30216641 30216685
chr_1 g13451 g13451.t16 cds g13451.t16.CDS2 30216641 30216685
chr_1 g13451 g13451.t16 exon g13451.t16.exon3 30216759 30216821
chr_1 g13451 g13451.t16 cds g13451.t16.CDS3 30216759 30216821
chr_1 g13451 g13451.t16 exon g13451.t16.exon4 30216878 30217023
chr_1 g13451 g13451.t16 cds g13451.t16.CDS4 30216878 30217023
chr_1 g13451 g13451.t16 exon g13451.t16.exon5 30217084 30217230
chr_1 g13451 g13451.t16 cds g13451.t16.CDS5 30217084 30217230
chr_1 g13451 g13451.t16 TTS g13451.t16 30217346 30217346

Sequences

>g13451.t16 Gene=g13451 Length=453
ATGGAAGTCAATGGCACTAATCATCAAAAGATCGTGAATATTGACGATTTAGACGTTGGT
GATCAAGATTTGATAAGAAAAGCAGTTGAGGCGAGGAGTCCATATTCAAATTTTGCTGTG
GGGAGTGCATTGAGAACTAACACTGGTGAAATTTTTACAGGATGTAATGTTGAGAATGTT
GCCCATTCTCCTGGAGTTTGTGCCGAAAGAACAGCTATTGTAAAAGCTGTTAGTGAAGGA
TTTACAAAATTTGATGCAATTGCAGTAGTTGCATATTTAGAAAATGATTTTTGCACACCA
TGTGGCGTATGCAGACAAGCTCTTTCGGAATTTGCATCACCGGATATTAAAGTGTTTGTT
GCTAAACCAGTTGCTATTAGAGTATTGTGTACTTCAGTTCAAGAACTTCTTCCATATCGT
TTTTCTCCTGATAAATTGCAAAAACAATTGTAA

>g13451.t16 Gene=g13451 Length=150
MEVNGTNHQKIVNIDDLDVGDQDLIRKAVEARSPYSNFAVGSALRTNTGEIFTGCNVENV
AHSPGVCAERTAIVKAVSEGFTKFDAIAVVAYLENDFCTPCGVCRQALSEFASPDIKVFV
AKPVAIRVLCTSVQELLPYRFSPDKLQKQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13451.t16 CDD cd01283 cytidine_deaminase 24 123 5.89196E-39
4 g13451.t16 Gene3D G3DSA:3.40.140.10 Cytidine Deaminase 9 150 3.4E-45
2 g13451.t16 PANTHER PTHR11644 CYTIDINE DEAMINASE 31 149 3.3E-39
1 g13451.t16 Pfam PF00383 Cytidine and deoxycytidylate deaminase zinc-binding region 27 115 1.4E-14
6 g13451.t16 ProSitePatterns PS00903 Cytidine and deoxycytidylate deaminases zinc-binding region signature. 67 108 -
7 g13451.t16 ProSiteProfiles PS51747 Cytidine and deoxycytidylate deaminases domain profile. 15 144 24.704
3 g13451.t16 SUPERFAMILY SSF53927 Cytidine deaminase-like 19 146 1.36E-39
8 g13451.t16 TIGRFAM TIGR01354 cyt_deam_tetra: cytidine deaminase 28 145 6.0E-37

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:0016787 hydrolase activity MF
GO:0009972 cytidine deamination BP
GO:0004126 cytidine deaminase activity MF
GO:0008270 zinc ion binding MF
GO:0003824 catalytic activity MF

KEGG

Orthology

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. There were no conditions that were differentially expressed