General information for g2898.t20
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2898 is located on chr_3: 20971793..20972650 (- 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 | g2898 | g2898.t20 | isoform | g2898.t20 | 20971714 | 20972307 |
| chr_3 | g2898 | g2898.t20 | exon | g2898.t20.exon1 | 20971714 | 20972307 |
| chr_3 | g2898 | g2898.t20 | TTS | g2898.t20 | 20971735 | 20971735 |
| chr_3 | g2898 | g2898.t20 | cds | g2898.t20.CDS1 | 20971793 | 20971990 |
| chr_3 | g2898 | g2898.t20 | TSS | g2898.t20 | NA | NA |
Sequences
>g2898.t20 Gene=g2898 Length=594
GTTCCAAGCAAAAAAATGTAATAAGTGATGCAATTGATCAAATACAGAAAAAGACATGTT
TAAAATTTAGACCACGTGGAGGTGAAGAAGATTATATTTTAATCACAAATGAAAATACAG
GTTGTTGGAGTTCTGTAGGAAAAATTGGCAATGCTCAAAAAGTAAATCTACAAGATGAAT
GTTTGTTAAAATTTGGAACTGTTATTCATGAACTTTTACATGCAATTGGTTTTTATCATG
AACAAAGTAGAAGTGATCGTGACATTTTTGTGAAAATTTTAACTGAAAATATATTGAGTG
ATCGTAGAGATAATTTTATGAAATTGAATGAAGGAGAAGATGAAACTTTCGGAGTAAGTT
ATGACTATGAGAGTGTTATGCATTACTCTCCTTTAGCCTTCACGTCAAATGGAAAACCTA
CAATTAAAAGTTTAAAAGGAGAAAAATCAAATATGGGTCAACGTGAAAAATTAAGCGAAA
AGGACATTAAGAAAATCAACAAAATGTATTGTTAAGCTTTTTTTATTGTATGATTTGAAC
AATTTCGGACATGAATAAACTTTTATGGAAAAAGAAAACTGTTTTAAAATGAAT
>g2898.t20 Gene=g2898 Length=65
MKLNEGEDETFGVSYDYESVMHYSPLAFTSNGKPTIKSLKGEKSNMGQREKLSEKDIKKI
NKMYC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2898.t20 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 1 | 65 | 0.0000000 |
| 2 | g2898.t20 | PANTHER | PTHR10127:SF837 | METALLOENDOPEPTIDASE | 3 | 65 | 0.0000000 |
| 3 | g2898.t20 | PANTHER | PTHR10127 | DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING | 3 | 65 | 0.0000000 |
| 4 | g2898.t20 | PRINTS | PR00480 | Astacin family signature | 14 | 29 | 0.0000008 |
| 5 | g2898.t20 | PRINTS | PR00480 | Astacin family signature | 52 | 65 | 0.0000008 |
| 1 | g2898.t20 | Pfam | PF01400 | Astacin (Peptidase family M12A) | 4 | 65 | 0.0000000 |
| 8 | g2898.t20 | ProSiteProfiles | PS51864 | Astacin-like domain profile. | 1 | 65 | 27.2680000 |
| 6 | g2898.t20 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 7 | 64 | 0.0000000 |
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:0008237 | metallopeptidase activity | MF |
| GO:0006508 | proteolysis | BP |
| GO:0004222 | metalloendopeptidase 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.
