General information for g2899.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc metalloproteinase nas-7.
Parent gene
- The parent gene g2899 is located on chr_3: 20973569..20975162 (- 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 | g2899 | g2899.t3 | isoform | g2899.t3 | 20973569 | 20975162 |
| chr_3 | g2899 | g2899.t3 | exon | g2899.t3.exon1 | 20973569 | 20973920 |
| chr_3 | g2899 | g2899.t3 | cds | g2899.t3.CDS1 | 20973666 | 20973920 |
| chr_3 | g2899 | g2899.t3 | exon | g2899.t3.exon2 | 20974206 | 20974270 |
| chr_3 | g2899 | g2899.t3 | cds | g2899.t3.CDS2 | 20974206 | 20974270 |
| chr_3 | g2899 | g2899.t3 | exon | g2899.t3.exon3 | 20974325 | 20974393 |
| chr_3 | g2899 | g2899.t3 | cds | g2899.t3.CDS3 | 20974325 | 20974393 |
| chr_3 | g2899 | g2899.t3 | exon | g2899.t3.exon4 | 20974453 | 20974631 |
| chr_3 | g2899 | g2899.t3 | cds | g2899.t3.CDS4 | 20974453 | 20974631 |
| chr_3 | g2899 | g2899.t3 | exon | g2899.t3.exon5 | 20974696 | 20975162 |
| chr_3 | g2899 | g2899.t3 | cds | g2899.t3.CDS5 | 20974696 | 20975162 |
| chr_3 | g2899 | g2899.t3 | TSS | g2899.t3 | 20975179 | 20975179 |
| chr_3 | g2899 | g2899.t3 | TTS | g2899.t3 | NA | NA |
Sequences
>g2899.t3 Gene=g2899 Length=1132
ATGGCTTTCACTATGAAGAGTTTTAGAACATTTTTTCTAATTTTTGTTATCGAATTCAGT
TTAATTTATTCGTACCCGAGTAATTCTATAGAAGAAGATGATGTTGATATTGATGTAATA
GATTTGTCACGTTTCGGTGAAAAATTATTTGGTGACCCTAATCATGATGTTGGTAAAATG
GTTAATGAATGGACACCAGAAAGTGGACAAAATCCTGAAGAACTTGGAACATATGTAGAA
GGTGATATTTTAATTCCTTCTGAATACGGACGTAACGGTTTAGCTAAAGAATCTTCAAGA
TGGAAAAACAGAATTGTTCCTTACGTTATTCATAGTTCTGTTCCTCCAACCGATAGACAA
CTTATCAAAAAGGCTATAGATATATATGAACAACAGACTTGTATTCGATTTGTGCCTCGA
ACAAATGAAAAAGATTATGTCTCTGTAGAAAGCTCAAATACAGGATGTTGGAGCTCAGTT
GGAAGAGTTGGTGGCAAGCAAATTGTAAATCTTCAGAGCGGTGGTTGTACACAAAAAGTT
GGAACCATTCTTCATGAATTTTTACATGCTTTAGGATTTTATCATGAGCAAAATAGACCC
AATCGTGATAATTATATTCGAGTATTGACACAAAATATAAAACCAGAAACTTTACCAAAC
TTTGATAAAGCAAAACCAGGCGAAACAATTGATTATGGAGTTCAATATGATTTAGGTTCT
GTTATGCATTACTCATCAACTGCATTCTCACGCAATGGAGCAAAAACTATTGTACCACTT
TCTGGTGCTGAATCAAAAATGGGACAACGAGATGGATTCTCTCGTGGAGATTTGATTAAA
TTGAATGCAATGTATCAATGTGATAACATTGTGCCAAACAACATTGGAAATCCTGGCGTG
CCTGTTAATGGTGGTAATGGATTCAATCAAGTTGTTGGTGGATTTATTTCTGGATTAGGA
TCATTCTTCAGTGCTCTTGGTGGTGGACGACATGACGAAAATGATATTAATAATAATTTT
GAAATTGATCCTTAACTTTTTTGAAATGTTGAACTAATACATTTTTACTAATAAAGCACA
ATTCATTTTTATTTTTATAAAATACTTGCTGCATTTAAAAATATTTTTTAGG
>g2899.t3 Gene=g2899 Length=344
MAFTMKSFRTFFLIFVIEFSLIYSYPSNSIEEDDVDIDVIDLSRFGEKLFGDPNHDVGKM
VNEWTPESGQNPEELGTYVEGDILIPSEYGRNGLAKESSRWKNRIVPYVIHSSVPPTDRQ
LIKKAIDIYEQQTCIRFVPRTNEKDYVSVESSNTGCWSSVGRVGGKQIVNLQSGGCTQKV
GTILHEFLHALGFYHEQNRPNRDNYIRVLTQNIKPETLPNFDKAKPGETIDYGVQYDLGS
VMHYSSTAFSRNGAKTIVPLSGAESKMGQRDGFSRGDLIKLNAMYQCDNIVPNNIGNPGV
PVNGGNGFNQVVGGFISGLGSFFSALGGGRHDENDINNNFEIDP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g2899.t3 | CDD | cd04280 | ZnMc_astacin_like | 103 | 285 | 2.58478E-94 |
| 11 | g2899.t3 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 58 | 290 | 1.4E-81 |
| 2 | g2899.t3 | PANTHER | PTHR10127:SF837 | METALLOENDOPEPTIDASE | 12 | 306 | 5.9E-110 |
| 3 | g2899.t3 | PANTHER | PTHR10127 | DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING | 12 | 306 | 5.9E-110 |
| 6 | g2899.t3 | PRINTS | PR00480 | Astacin family signature | 122 | 140 | 2.0E-27 |
| 7 | g2899.t3 | PRINTS | PR00480 | Astacin family signature | 177 | 195 | 2.0E-27 |
| 5 | g2899.t3 | PRINTS | PR00480 | Astacin family signature | 196 | 213 | 2.0E-27 |
| 4 | g2899.t3 | PRINTS | PR00480 | Astacin family signature | 235 | 250 | 2.0E-27 |
| 8 | g2899.t3 | PRINTS | PR00480 | Astacin family signature | 273 | 286 | 2.0E-27 |
| 1 | g2899.t3 | Pfam | PF01400 | Astacin (Peptidase family M12A) | 100 | 288 | 1.4E-63 |
| 13 | g2899.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 24 | - |
| 14 | g2899.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 15 | g2899.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 17 | - |
| 16 | g2899.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 24 | - |
| 12 | g2899.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 344 | - |
| 19 | g2899.t3 | ProSiteProfiles | PS51864 | Astacin-like domain profile. | 92 | 288 | 85.675 |
| 18 | g2899.t3 | SMART | SM00235 | col_5 | 97 | 240 | 2.8E-44 |
| 9 | g2899.t3 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 98 | 287 | 3.11E-58 |
| 10 | g2899.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
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 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.
