General information for g2898.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc metalloproteinase nas-13.
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.t1 | TTS | g2898.t1 | 20971735 | 20971735 |
| chr_3 | g2898 | g2898.t1 | isoform | g2898.t1 | 20971793 | 20972650 |
| chr_3 | g2898 | g2898.t1 | exon | g2898.t1.exon1 | 20971793 | 20972307 |
| chr_3 | g2898 | g2898.t1 | cds | g2898.t1.CDS1 | 20971793 | 20972307 |
| chr_3 | g2898 | g2898.t1 | exon | g2898.t1.exon2 | 20972374 | 20972650 |
| chr_3 | g2898 | g2898.t1 | cds | g2898.t1.CDS2 | 20972374 | 20972650 |
| chr_3 | g2898 | g2898.t1 | TSS | g2898.t1 | NA | NA |
Sequences
>g2898.t1 Gene=g2898 Length=792
ATGTTTTTCTTTAAAACATTTTTATTCTTAATAGTAGTCTTCTATCATGAAGCTGAAACA
TTTAAATTAGATTTGAGTAAAATAATTTCTACATCTGATGAAAGCTCAGGAAAAGCTTTG
AATAATTGGAATATATTAAAGTCAGGCAACGCTGAAGAACAAGGAAATTATTTTGAAGGA
GACATCATTCTCAATTTGGATCAAAGAAATGGAATAAGACTTCCAACACAAAAGTGGGAT
AAGGGAATCATACCTTATAAAATTGAAGGAGGTTTCAGTTCCAAGCAAAAAAATGTAATA
AGTGATGCAATTGATCAAATACAGAAAAAGACATGTTTAAAATTTAGACCACGTGGAGGT
GAAGAAGATTATATTTTAATCACAAATGAAAATACAGGTTGTTGGAGTTCTGTAGGAAAA
ATTGGCAATGCTCAAAAAGTAAATCTACAAGATGAATGTTTGTTAAAATTTGGAACTGTT
ATTCATGAACTTTTACATGCAATTGGTTTTTATCATGAACAAAGTAGAAGTGATCGTGAC
ATTTTTGTGAAAATTTTAACTGAAAATATATTGAGTGATCGTAGAGATAATTTTATGAAA
TTGAATGAAGGAGAAGATGAAACTTTCGGAGTAAGTTATGACTATGAGAGTGTTATGCAT
TACTCTCCTTTAGCCTTCACGTCAAATGGAAAACCTACAATTAAAAGTTTAAAAGGAGAA
AAATCAAATATGGGTCAACGTGAAAAATTAAGCGAAAAGGACATTAAGAAAATCAACAAA
ATGTATTGTTAA
>g2898.t1 Gene=g2898 Length=263
MFFFKTFLFLIVVFYHEAETFKLDLSKIISTSDESSGKALNNWNILKSGNAEEQGNYFEG
DIILNLDQRNGIRLPTQKWDKGIIPYKIEGGFSSKQKNVISDAIDQIQKKTCLKFRPRGG
EEDYILITNENTGCWSSVGKIGNAQKVNLQDECLLKFGTVIHELLHAIGFYHEQSRSDRD
IFVKILTENILSDRRDNFMKLNEGEDETFGVSYDYESVMHYSPLAFTSNGKPTIKSLKGE
KSNMGQREKLSEKDIKKINKMYC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g2898.t1 | CDD | cd04280 | ZnMc_astacin_like | 81 | 262 | 5.64968E-95 |
| 11 | g2898.t1 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 36 | 263 | 6.3E-79 |
| 2 | g2898.t1 | PANTHER | PTHR10127:SF837 | METALLOENDOPEPTIDASE | 29 | 263 | 6.9E-85 |
| 3 | g2898.t1 | PANTHER | PTHR10127 | DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING | 29 | 263 | 6.9E-85 |
| 5 | g2898.t1 | PRINTS | PR00480 | Astacin family signature | 100 | 118 | 9.9E-28 |
| 4 | g2898.t1 | PRINTS | PR00480 | Astacin family signature | 154 | 172 | 9.9E-28 |
| 6 | g2898.t1 | PRINTS | PR00480 | Astacin family signature | 173 | 190 | 9.9E-28 |
| 8 | g2898.t1 | PRINTS | PR00480 | Astacin family signature | 212 | 227 | 9.9E-28 |
| 7 | g2898.t1 | PRINTS | PR00480 | Astacin family signature | 250 | 263 | 9.9E-28 |
| 1 | g2898.t1 | Pfam | PF01400 | Astacin (Peptidase family M12A) | 77 | 263 | 1.8E-63 |
| 13 | g2898.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 14 | g2898.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 15 | g2898.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 14 | - |
| 16 | g2898.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 18 | - |
| 12 | g2898.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 263 | - |
| 19 | g2898.t1 | ProSiteProfiles | PS51864 | Astacin-like domain profile. | 70 | 263 | 78.497 |
| 18 | g2898.t1 | SMART | SM00235 | col_5 | 75 | 217 | 1.1E-40 |
| 9 | g2898.t1 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 75 | 262 | 2.17E-56 |
| 10 | g2898.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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 |
| GO:0008270 | zinc ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K08606 (meprin B)
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.
