General information for g13901.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 5’-deoxynucleotidase HDDC2.
Parent gene
- The parent gene g13901 is located on chr_1: 33203151..33204178 (- 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 | g13901 | g13901.t1 | TTS | g13901.t1 | 33202820 | 33202820 |
| chr_1 | g13901 | g13901.t1 | isoform | g13901.t1 | 33203151 | 33204178 |
| chr_1 | g13901 | g13901.t1 | exon | g13901.t1.exon1 | 33203151 | 33203702 |
| chr_1 | g13901 | g13901.t1 | cds | g13901.t1.CDS1 | 33203151 | 33203702 |
| chr_1 | g13901 | g13901.t1 | exon | g13901.t1.exon2 | 33204092 | 33204178 |
| chr_1 | g13901 | g13901.t1 | cds | g13901.t1.CDS2 | 33204092 | 33204178 |
| chr_1 | g13901 | g13901.t1 | TSS | g13901.t1 | 33204422 | 33204422 |
Sequences
>g13901.t1 Gene=g13901 Length=639
ATGAACGGTAGACAAGCATCATCTACAACATCGAATGGCAACTATGGAGATTACATTAAA
TTTCTCGAATTAGTCGGAAATTGCAAACACATAAAACGCACAGGCTGGGTGCTGAGAGAT
GTTCATGATCCCGAGACGATATCTGGTCATATGTATAGAATGTCAGTAATGTCATTTCTC
ATACCAGAGGATATGAAACTGAATCGCATCAAATGTATGAAATTAGCTTTAATTCACGAT
TTGGCAGAGAGTTTAGTAGGCGACATTACTCCTTATTGTGGCATTAGTAAGCAAGAAAAG
AGGCTACGTGAACACAAAGCAATTTTAGAAATCTGTAGTTTGTTAGATCAAACTGGCAGC
GAAGAAATACTAAAACTTTTCGAAGAGTATGAGAATCAAGAGACAGCTGAAGCTCAATTA
GTTAAAGATTTTGATCTTTATGACATGGTGCTACAAGCATTTGAATACGAGAAGAGAGAT
GAAAAACCCAAATTGCATGAGGAATTTTTTGTGAATACAAAAGGTAGATTCAAAACTGAA
TTCGTTCGTAAGCTTGTAGAAGAGCTTCATAAGCAGAGAGAAGAATATTACGAGAATTTC
ACATCAGACATGAAAAAGAAAAACCATAGTGCAAGTTGA
>g13901.t1 Gene=g13901 Length=212
MNGRQASSTTSNGNYGDYIKFLELVGNCKHIKRTGWVLRDVHDPETISGHMYRMSVMSFL
IPEDMKLNRIKCMKLALIHDLAESLVGDITPYCGISKQEKRLREHKAILEICSLLDQTGS
EEILKLFEEYENQETAEAQLVKDFDLYDMVLQAFEYEKRDEKPKLHEEFFVNTKGRFKTE
FVRKLVEELHKQREEYYENFTSDMKKKNHSAS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13901.t1 | Gene3D | G3DSA:1.10.3210.10 | Hypothetical protein af1432 | 4 | 205 | 0.00000 |
| 2 | g13901.t1 | PANTHER | PTHR11845 | UNCHARACTERIZED | 12 | 197 | 0.00000 |
| 1 | g13901.t1 | Pfam | PF13023 | HD domain | 26 | 183 | 0.00000 |
| 4 | g13901.t1 | SMART | SM00471 | hd_13 | 43 | 159 | 0.00095 |
| 3 | g13901.t1 | SUPERFAMILY | SSF109604 | HD-domain/PDEase-like | 17 | 196 | 0.00000 |
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:0002953 | 5’-deoxynucleotidase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K07023 (5’-deoxynucleotidase)
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.
