General information for g9890.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9890 is located on chr_1: 5898916..5902604 (- 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 | g9890 | g9890.t3 | TTS | g9890.t3 | 5896491 | 5896491 |
| chr_1 | g9890 | g9890.t3 | isoform | g9890.t3 | 5897469 | 5898513 |
| chr_1 | g9890 | g9890.t3 | exon | g9890.t3.exon1 | 5897469 | 5897831 |
| chr_1 | g9890 | g9890.t3 | cds | g9890.t3.CDS1 | 5897803 | 5897831 |
| chr_1 | g9890 | g9890.t3 | exon | g9890.t3.exon2 | 5898198 | 5898513 |
| chr_1 | g9890 | g9890.t3 | cds | g9890.t3.CDS2 | 5898198 | 5898351 |
| chr_1 | g9890 | g9890.t3 | TSS | g9890.t3 | 5898806 | 5898806 |
Sequences
>g9890.t3 Gene=g9890 Length=679
AATCAAATTTTCGATGTTCAAGAAGCAATCGATTGGATTACTGCTTTAAAAGATTTTAAT
ATTTTATGGTTTGAAGAACCAACGTCACCAGATGATGTGCTTGGACATAAAAAAATTGCT
GAAGCAATAAAAGAATTTGGCATTGGTGTTGCAAGTGGTGAAATGATTTGTAATCGTGTG
ATTTTTAAACAATTCATGCAAGTGGGAGCATTTAAATTTTGTCAAGTTGATTCAGCAAGA
ATTGGTGGAGTAAGCGAATTATTGATAGTTTATCTCATGGCAAAGAAAATGAATGTTAAC
GTCACTCCACATGCAGAAAAGGTGGAGTCGGTTTGTCTGAGATGATTCAACATTTGCAAT
TTTGGGATTATATTTGTGTATCAGGCACAAAAGAAGGAAGATATATTGAGTATGTTGATC
AGTCTCATGATTACTTTGTTGACGGTGTTGTAGTTGAAAATGCACATTATCAAGCAAAGA
TGGTACCAGGTTTTAACACACAATTCACTGATGAATGTATTGAAAATTATGCATATCCGC
ATGGTAAAAAATGGCAAGAGTTATTTGATGCAAATATTTTTCCAAGACCTGCTAAATAAG
CAGCTTAAGCATTTCATATATTTTCATATGCATGAAAAATATTTTTCTTTTATATCAAAA
TTTAAACAGGAAATAAAGG
>g9890.t3 Gene=g9890 Length=60
MICNRVIFKQFMQVGAFKFCQVDSARIGGVSELLIVYLMAKKMNVNVTPHAEKVESVCLR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9890.t3 | Gene3D | G3DSA:3.20.20.120 | Enolase superfamily | 1 | 59 | 0 |
| 2 | g9890.t3 | PANTHER | PTHR13794 | ENOLASE SUPERFAMILY, MANDELATE RACEMASE | 2 | 55 | 0 |
| 1 | g9890.t3 | Pfam | PF13378 | Enolase C-terminal domain-like | 2 | 51 | 0 |
| 3 | g9890.t3 | SUPERFAMILY | SSF51604 | Enolase C-terminal domain-like | 2 | 55 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
