General information for g11628.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Zinc metalloproteinase nas-4.
Parent gene
- The parent gene g11628 is located on chr_1: 17497307..17498062 (+ 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 | g11628 | g11628.t1 | isoform | g11628.t1 | 17496934 | 17497971 |
| chr_1 | g11628 | g11628.t1 | exon | g11628.t1.exon1 | 17496934 | 17497249 |
| chr_1 | g11628 | g11628.t1 | cds | g11628.t1.CDS1 | 17496934 | 17497249 |
| chr_1 | g11628 | g11628.t1 | exon | g11628.t1.exon2 | 17497307 | 17497971 |
| chr_1 | g11628 | g11628.t1 | cds | g11628.t1.CDS2 | 17497307 | 17497971 |
| chr_1 | g11628 | g11628.t1 | TSS | g11628.t1 | NA | NA |
| chr_1 | g11628 | g11628.t1 | TTS | g11628.t1 | NA | NA |
Sequences
>g11628.t1 Gene=g11628 Length=981
ATGTTCACACCTGTTTTATGCTGTTTCATTATAATTTATACATTGCAACAATTAGTATTT
ACAAGCCCCATTGAGAGTGAGGATGTAATAGATGTAATAGATTTATCTCATTTGGGAGCA
AGATTGTATGGAAAACCAGATTATAATTTTGGAAAAGAATTTAATACAATAAATATAAAC
GATAATCCAGAAGAGAAAGGACCATATCTTGAAGGTGATTTATTAATGTTACAAAATCTT
TCACGAAATGGAATGAAGAATGAAGTTTTAAGATGGAAAGGTGGTGAAATACCTTATATT
ATTCGTGGAAAATTTAATACAAATGAAATGAATGTTATACAAAACGCATTTAATCAATAT
CATCGACAAACATGTATAAAATTTATACCACGACGTCCATCACATAGCGACTATATAGTA
ATTGAAAATGCACAATCAGGATGTTGGAGCTCTGTTGGAAGAATTTCAGGAGAACAAAAA
GTTAATTTGCAGTCGCCTGGTTGTGTCACAAAAACTGGAACAGTTGTGCATGAACTTTTA
CATGTACTTGGGTTTTTGCATGAACAAAATAGAGAAGACCGTGATAAATTTGTAAAAATT
ATTGAAGGAAATATTCGTAATGGTTATGAAGTGAATTTTAAAAAAGCTGAATCAGGTGAA
ACCAGTAGTTTTGGTGTTGCTTATGATTATGGTAGTGTGCTGCATTATAGTGCAAATGCT
TTTTCAAAAAATGGAAATCCTACAATTGAAGCTAGAATGAAGACATCAGAAAAGATGGGG
CAACGTGAAGGATTTTCAAAAAAAGATATTGAGAAAGTAAATAAAATGTACAAGTGTCAA
AAAACTACAGCTGAAGAAGATCCTGATATAATGACATCTACCATCGGACCACCTAGTCAA
TCACCATCGATTTTTGGTAACATCCTAGAAATTCTTTTTCCTACTTCAAGCATGGATGAA
GAAGAAATGATAGACGTATAA
>g11628.t1 Gene=g11628 Length=326
MFTPVLCCFIIIYTLQQLVFTSPIESEDVIDVIDLSHLGARLYGKPDYNFGKEFNTININ
DNPEEKGPYLEGDLLMLQNLSRNGMKNEVLRWKGGEIPYIIRGKFNTNEMNVIQNAFNQY
HRQTCIKFIPRRPSHSDYIVIENAQSGCWSSVGRISGEQKVNLQSPGCVTKTGTVVHELL
HVLGFLHEQNREDRDKFVKIIEGNIRNGYEVNFKKAESGETSSFGVAYDYGSVLHYSANA
FSKNGNPTIEARMKTSEKMGQREGFSKKDIEKVNKMYKCQKTTAEEDPDIMTSTIGPPSQ
SPSIFGNILEILFPTSSMDEEEMIDV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g11628.t1 | CDD | cd04280 | ZnMc_astacin_like | 94 | 277 | 1.82855E-87 |
| 11 | g11628.t1 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 46 | 282 | 9.8E-77 |
| 2 | g11628.t1 | PANTHER | PTHR10127:SF837 | METALLOENDOPEPTIDASE | 11 | 296 | 4.4E-110 |
| 3 | g11628.t1 | PANTHER | PTHR10127 | DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING | 11 | 296 | 4.4E-110 |
| 7 | g11628.t1 | PRINTS | PR00480 | Astacin family signature | 113 | 131 | 1.0E-27 |
| 4 | g11628.t1 | PRINTS | PR00480 | Astacin family signature | 169 | 187 | 1.0E-27 |
| 8 | g11628.t1 | PRINTS | PR00480 | Astacin family signature | 188 | 205 | 1.0E-27 |
| 6 | g11628.t1 | PRINTS | PR00480 | Astacin family signature | 227 | 242 | 1.0E-27 |
| 5 | g11628.t1 | PRINTS | PR00480 | Astacin family signature | 265 | 278 | 1.0E-27 |
| 1 | g11628.t1 | Pfam | PF01400 | Astacin (Peptidase family M12A) | 91 | 280 | 1.2E-64 |
| 13 | g11628.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 14 | g11628.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 15 | g11628.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 16 | g11628.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 12 | g11628.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 326 | - |
| 19 | g11628.t1 | ProSiteProfiles | PS51864 | Astacin-like domain profile. | 83 | 280 | 75.122 |
| 18 | g11628.t1 | SMART | SM00235 | col_5 | 88 | 232 | 4.3E-39 |
| 9 | g11628.t1 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 88 | 280 | 1.85E-55 |
| 10 | g11628.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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. There were no conditions that were differentially expressed