General information for g1494.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Deoxycytidylate deaminase.
Parent gene
- The parent gene g1494 is located on chr_3: 11378622..11379212 (- 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_3 | g1494 | g1494.t1 | isoform | g1494.t1 | 11378622 | 11379212 |
| chr_3 | g1494 | g1494.t1 | exon | g1494.t1.exon1 | 11378622 | 11379212 |
| chr_3 | g1494 | g1494.t1 | cds | g1494.t1.CDS1 | 11378622 | 11379212 |
| chr_3 | g1494 | g1494.t1 | TSS | g1494.t1 | NA | NA |
| chr_3 | g1494 | g1494.t1 | TTS | g1494.t1 | NA | NA |
Sequences
>g1494.t1 Gene=g1494 Length=591
ATGCAGCTTTTCGCATACTGCTTTACAATAATTACTAATGCTGTAGTCACAACAGTAAAA
TGTCAAACACAAGCTCGCAAAAATTACTTGAAATGGGAAGAATGTTTTATGAAAATTGCT
TTGATTGCAGCCGAAAGAAGTAAAGATCCAAAAACACAAGTTGGTGCTTGCATTGTTGAT
GATGATCATCGAATTCTTGGTGTTGGCTATAATGGTTTTCCTAAAACAGAACATAAAGAC
AATGATGGAGGAATTTATTCATGGAATTCAGATGAGAAACACGATTATGTATGTCATGCA
GAAAGAAATGCAATTGCACACTCCAACGGTAATTTAAAAGGTGCAACAATGTATGTCACA
CTACATCCATGTAATGAATGCGCTAAAGAAATTATACAAAAAGAATTTAAACGTGTTATT
TATATTGATGAGAAAGATTCACCTTTTATTAAATTGGAAGCAGCAAAAAAAATGTTTCGA
CATAGCAAATTGGGTGAAGCTGTTCAATATCATAAATTGATTGCTGACAAGTATGGCGTG
AATTTTAAAACATCTTTGATGACGAAGGTTGCTTTTTCTATTGCGAAATAG
>g1494.t1 Gene=g1494 Length=196
MQLFAYCFTIITNAVVTTVKCQTQARKNYLKWEECFMKIALIAAERSKDPKTQVGACIVD
DDHRILGVGYNGFPKTEHKDNDGGIYSWNSDEKHDYVCHAERNAIAHSNGNLKGATMYVT
LHPCNECAKEIIQKEFKRVIYIDEKDSPFIKLEAAKKMFRHSKLGEAVQYHKLIADKYGV
NFKTSLMTKVAFSIAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1494.t1 | CDD | cd01286 | deoxycytidylate_deaminase | 36 | 160 | 3.8724E-45 |
| 4 | g1494.t1 | Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase | 21 | 188 | 4.6E-45 |
| 2 | g1494.t1 | PANTHER | PTHR11086 | DEOXYCYTIDYLATE DEAMINASE-RELATED | 21 | 182 | 5.3E-49 |
| 1 | g1494.t1 | Pfam | PF00383 | Cytidine and deoxycytidylate deaminase zinc-binding region | 31 | 142 | 2.5E-26 |
| 6 | g1494.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 14 | - |
| 7 | g1494.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 8 | g1494.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 9 | g1494.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 14 | - |
| 5 | g1494.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 15 | 196 | - |
| 11 | g1494.t1 | ProSitePatterns | PS00903 | Cytidine and deoxycytidylate deaminases zinc-binding region signature. | 99 | 131 | - |
| 12 | g1494.t1 | ProSiteProfiles | PS51747 | Cytidine and deoxycytidylate deaminases domain profile. | 31 | 166 | 24.069 |
| 3 | g1494.t1 | SUPERFAMILY | SSF53927 | Cytidine deaminase-like | 34 | 146 | 1.25E-32 |
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: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