Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Zinc metalloproteinase nas-4.

Parent gene

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.t2 isoform g11628.t2 17497307 17498062
chr_1 g11628 g11628.t2 exon g11628.t2.exon1 17497307 17498062
chr_1 g11628 g11628.t2 cds g11628.t2.CDS1 17497318 17497971
chr_1 g11628 g11628.t2 TSS g11628.t2 NA NA
chr_1 g11628 g11628.t2 TTS g11628.t2 NA NA

Sequences

>g11628.t2 Gene=g11628 Length=756
ATACAAATGAAATGAATGTTATACAAAACGCATTTAATCAATATCATCGACAAACATGTA
TAAAATTTATACCACGACGTCCATCACATAGCGACTATATAGTAATTGAAAATGCACAAT
CAGGATGTTGGAGCTCTGTTGGAAGAATTTCAGGAGAACAAAAAGTTAATTTGCAGTCGC
CTGGTTGTGTCACAAAAACTGGAACAGTTGTGCATGAACTTTTACATGTACTTGGGTTTT
TGCATGAACAAAATAGAGAAGACCGTGATAAATTTGTAAAAATTATTGAAGGAAATATTC
GTAATGGTTATGAAGTGAATTTTAAAAAAGCTGAATCAGGTGAAACCAGTAGTTTTGGTG
TTGCTTATGATTATGGTAGTGTGCTGCATTATAGTGCAAATGCTTTTTCAAAAAATGGAA
ATCCTACAATTGAAGCTAGAATGAAGACATCAGAAAAGATGGGGCAACGTGAAGGATTTT
CAAAAAAAGATATTGAGAAAGTAAATAAAATGTACAAGTGTCAAAAAACTACAGCTGAAG
AAGATCCTGATATAATGACATCTACCATCGGACCACCTAGTCAATCACCATCGATTTTTG
GTAACATCCTAGAAATTCTTTTTCCTACTTCAAGCATGGATGAAGAAGAAATGATAGACG
TATAAATAAATCAATCAACACGTACATGTTCTCCTTCTTATTGCTTTATTTGCTCTAAAT
AAATTTATATGCTCGAATAAAGTTTTTTGTTATGCT

>g11628.t2 Gene=g11628 Length=217
MNVIQNAFNQYHRQTCIKFIPRRPSHSDYIVIENAQSGCWSSVGRISGEQKVNLQSPGCV
TKTGTVVHELLHVLGFLHEQNREDRDKFVKIIEGNIRNGYEVNFKKAESGETSSFGVAYD
YGSVLHYSANAFSKNGNPTIEARMKTSEKMGQREGFSKKDIEKVNKMYKCQKTTAEEDPD
IMTSTIGPPSQSPSIFGNILEILFPTSSMDEEEMIDV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g11628.t2 CDD cd04280 ZnMc_astacin_like 2 168 0.000
10 g11628.t2 Gene3D G3DSA:3.40.390.10 Collagenase (Catalytic Domain) 1 173 0.000
2 g11628.t2 PANTHER PTHR10127:SF837 METALLOENDOPEPTIDASE 1 187 0.000
3 g11628.t2 PANTHER PTHR10127 DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING 1 187 0.000
5 g11628.t2 PRINTS PR00480 Astacin family signature 4 22 0.000
7 g11628.t2 PRINTS PR00480 Astacin family signature 60 78 0.000
4 g11628.t2 PRINTS PR00480 Astacin family signature 79 96 0.000
8 g11628.t2 PRINTS PR00480 Astacin family signature 118 133 0.000
6 g11628.t2 PRINTS PR00480 Astacin family signature 156 169 0.000
1 g11628.t2 Pfam PF01400 Astacin (Peptidase family M12A) 2 171 0.000
13 g11628.t2 ProSiteProfiles PS51864 Astacin-like domain profile. 1 171 67.248
12 g11628.t2 SMART SM00235 col_5 1 123 0.000
9 g11628.t2 SUPERFAMILY SSF55486 Metalloproteases (zincins), catalytic domain 2 171 0.000

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