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_2 g7506 g7506.t4 TTS g7506.t4 24105001 24105001
chr_2 g7506 g7506.t4 isoform g7506.t4 24105093 24106212
chr_2 g7506 g7506.t4 exon g7506.t4.exon1 24105093 24105617
chr_2 g7506 g7506.t4 cds g7506.t4.CDS1 24105093 24105617
chr_2 g7506 g7506.t4 exon g7506.t4.exon2 24105675 24105787
chr_2 g7506 g7506.t4 cds g7506.t4.CDS2 24105675 24105743
chr_2 g7506 g7506.t4 exon g7506.t4.exon3 24105846 24105928
chr_2 g7506 g7506.t4 exon g7506.t4.exon4 24106110 24106212
chr_2 g7506 g7506.t4 TSS g7506.t4 24106252 24106252

Sequences

>g7506.t4 Gene=g7506 Length=824
ATGATTAAAATCATTTGTATTTGCACTTTTGCCATTTTGGCATTAAACTCTGTTCGTTCA
CTTCCAATGCCTGATTATGTTGTACCCAACACACCAGAAAATCAAATGGTAAAACTGGAC
TTATTGCTGAAAGATTTCGATGGCCTGATAATATTATCCCTTACACAATTAATGAAGAAG
ACTTTTCTTCAGCACAAATTCATTATATTCATCTTGCTGCAGAGAGACTTATGGAAGTGA
CTTGTTTGAAATTTGTTCCATATAGAGAAGGCGTTCATACCAACTATATTTGGGTCACTG
GAGAAAATAGTGGTTGCTGGTCGTATGTAGGAATGCGTAATGGTCGTCAACAATTGAATT
TGACTCCTAACAATCCTGAAGTCGGATGTTTCCGTTTGTATACAATTGTTCATGAATTTA
TGCATGCATTAGGATTTTATCATATGCAAAGTGCAACCGAGAGAGATGAATATGTGAGAA
TCGTTTGGGAAAATATTCAAGCTGGAACACAAAACAATTTCAATACATATGATGCACAGA
CAATTACTCAATTTGGCATCGAGTATGATTATGGTTCAGTAATGCACTATTCAAGAACTG
CATTTAGTATAAATGGTTCTGACACAATCGTTGCACTTAAAGATTTGGGCGATAGCATTA
TGGGTCAAAGAGTCAGAATGAGTGACAAGGATATTGCAAGAATTAACGCTATGTATTGTC
CACTATCACCAAGACCACCACCACCACAATCACTTACAGAATTCTTCTACCGATTAAATA
ATGGAATGAACAAACTTTTTTATAACATCTTTTCTCGCTTCTAA

>g7506.t4 Gene=g7506 Length=197
MEVTCLKFVPYREGVHTNYIWVTGENSGCWSYVGMRNGRQQLNLTPNNPEVGCFRLYTIV
HEFMHALGFYHMQSATERDEYVRIVWENIQAGTQNNFNTYDAQTITQFGIEYDYGSVMHY
SRTAFSINGSDTIVALKDLGDSIMGQRVRMSDKDIARINAMYCPLSPRPPPPQSLTEFFY
RLNNGMNKLFYNIFSRF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7506.t4 CDD cd04280 ZnMc_astacin_like 2 162 0.000
9 g7506.t4 Gene3D G3DSA:3.40.390.10 Collagenase (Catalytic Domain) 1 165 0.000
2 g7506.t4 PANTHER PTHR10127:SF842 METALLOENDOPEPTIDASE 2 164 0.000
3 g7506.t4 PANTHER PTHR10127 DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING 2 164 0.000
6 g7506.t4 PRINTS PR00480 Astacin family signature 53 71 0.000
5 g7506.t4 PRINTS PR00480 Astacin family signature 72 89 0.000
4 g7506.t4 PRINTS PR00480 Astacin family signature 111 126 0.000
7 g7506.t4 PRINTS PR00480 Astacin family signature 150 163 0.000
1 g7506.t4 Pfam PF01400 Astacin (Peptidase family M12A) 3 164 0.000
12 g7506.t4 ProSiteProfiles PS51864 Astacin-like domain profile. 1 164 63.826
11 g7506.t4 SMART SM00235 col_5 2 116 0.000
8 g7506.t4 SUPERFAMILY SSF55486 Metalloproteases (zincins), catalytic domain 2 163 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