General information for g2439.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ADAM 17-like protease.
Parent gene
- The parent gene g2439 is located on chr_3: 18005856..18007019 (+ 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 | g2439 | g2439.t4 | TSS | g2439.t4 | 18004318 | 18004318 |
| chr_3 | g2439 | g2439.t4 | isoform | g2439.t4 | 18004381 | 18007019 |
| chr_3 | g2439 | g2439.t4 | exon | g2439.t4.exon1 | 18004381 | 18005307 |
| chr_3 | g2439 | g2439.t4 | cds | g2439.t4.CDS1 | 18004489 | 18005307 |
| chr_3 | g2439 | g2439.t4 | exon | g2439.t4.exon2 | 18005364 | 18005555 |
| chr_3 | g2439 | g2439.t4 | cds | g2439.t4.CDS2 | 18005364 | 18005555 |
| chr_3 | g2439 | g2439.t4 | exon | g2439.t4.exon3 | 18005856 | 18006761 |
| chr_3 | g2439 | g2439.t4 | cds | g2439.t4.CDS3 | 18005856 | 18005888 |
| chr_3 | g2439 | g2439.t4 | exon | g2439.t4.exon4 | 18006820 | 18007019 |
| chr_3 | g2439 | g2439.t4 | TTS | g2439.t4 | 18007090 | 18007090 |
Sequences
>g2439.t4 Gene=g2439 Length=2225
ATGGCGAAAATTTTCTTTGCTACATTTCTTGTATTTCTTCACTTATTTGAAGCTCAAAGT
GAGTAAATTTATTATAAAATTCTTTAAATTTGCATGTATTACTTTGGAATGTTGAAATTT
TTATTCAACTTTTTCAATAATTGTGAAAAATTTTCATTTTTCAAAAATTTTTTAGCCCAA
TTGCATAAAAATTTAAAATACTATGAAACATTACATGCAGATGAAATTACACATAAAATT
GTCAAAAGGGGAATAAAACCAAGTATCAATTTGCACAATAAAATTAGAGAAGTGGAATTT
ACTGCATTAGGAAAAAAATTCAAATTGATTCTTCATCCACACAGGGATGTTTTGCATCAA
AATTTTCGTGCAGTTACAGTAAATTCGGAAGGTAATGAAACAGTCGTTCATCTCGATCAA
GATAGCTTTTTCAGAGGTCGTGTATTTGGAGAGAGTACATCACATGTTTCTGCTCATATT
GATGAGAAAAATGTACTCACTGCTACAATAATTTTACCTGATGAAACTTATCATATTGAA
CCATCTTGGAGACATCTTGAGAAAAAACTCCCAGAAAGTAGCAACAAACATATGGTTGCT
TATAAAGCGTCAGACGTTAAATTGAGTTGGGAGCATCACAATGAAAATAAAAATGATGGA
GAGAATCATTTTGTTCCTGGCAGATGTGGATATGTTAAAGAAGGTGCTGAACTTGAAACA
GATGATGATGATGATGAAATTGAAGAACCAGAAGTTGAAGCATATGGTGGAAACGAAACA
CCGCATAGTGAAAGAAGATCAAAAAGACAAGCTGATCAATATGAATACACTCCAACAAAA
ACACGATGTCCTCTTTTACTCGTTGCTGATTATCGTTTTTTCCAAGAAATGGGAAGTTCA
AATACAAAAACTACAATTTCTTATTTGATAAGTCTAATTGATCGTGTTCATAAAATTTAT
AATGACACAATCTGGCAAGATCGAGATGTAGATGGATTTCGCGGAATGGGTTTTGTCATC
AAAAAAATTTTAGTTCATAGTGAGCCAACAAAAGTTAGAGGTGGTGAAGCTCATTACAAC
ATGATCCGAGAAAAATGGGATGTAAGAAATTTGCTTGAGAATATTTTAAAAATGGCTACA
CTCTCTATCTGAATTCTGGTCTTAGTTCATCAAGAAATCATTATGGTCAACGTGTGATCA
CAAGAGAAGCTGATTTAGTCACAGCACATGAATTTGGGCACAATTGGGGAAGTGAACATG
ATCCTGACATTGCTGAATGTTCTCCTTCAGCTTCACAAGGAGGAAGTTTCTTGATGTATA
CATATTCAGTTAGTGGTTATGATGTCAATAACAAGAAATTTTCACCATGTTCGTTACGTT
CAATAAGAAAAGTATTACAAGCAAAAAGTGGACGTTGTTTCTCAGAACCTGAAGAATCAT
TTTGTGGAAATTTGCGTGTTGAGGGTGATGAGCAGTGTGATGCTGGTTTATTAGGCACAG
AAGATAATGATCAATGCTGCGATAAAAACTGTAAATTACGAAAAAATCAGGGAGCAGTTT
GCAGTGATAAAAATTCTCCATGTTGTCAAAATTGTCAATTTATGCCAGCTGGAGTTAAGT
GTCGAGAGGCAGCATATAGTACTTGTGAACAAGAAGCGCGATGTACTGGAAACAGTGCTG
ATTGCCCTAAATCTCCTGCAATGCAAGATGGAACAATTTGTCAGGAACGTGGACAATGTC
GAAGTGGAAAATGTGTTCCTTTCTGCGAAACTCAAGGACTACAAAGTTGTATGTGCGATG
TTATTGCAGATGCATGCAAACGATGCTGCCGAATGTCCATTAATGAGACATGCTTTGCCG
TTGAACCACCTGATATTTTGCCAGATGGTACACCTTGCATTCAAGGCTTCTGTAATAAAG
GTGTTTGTGAAAAAACAATTCAAGATGTTGTTGAACGCTTCTGGGATATCATTGAAGAAA
TTAATATTAACAAAGTATTGAGATTTTTACGTGACAACATAGTTATCGTTGTTATTACGA
TCACAACATTATTTTGGGTACCAACCAGTTGTTTAATAAGTTATTTTGATAGACGTTCAA
GGCATGCAGAGTTAAAAGAATATAATTGGAAGCAACAATTAGATCTGATTCATCCAAGCG
ATCGTCGACGCGTCATTCATATTCGTGTCCCACGGCAAAAAATTACTTTACCTACAAGAA
TGTAA
>g2439.t4 Gene=g2439 Length=347
MLKFLFNFFNNCEKFSFFKNFLAQLHKNLKYYETLHADEITHKIVKRGIKPSINLHNKIR
EVEFTALGKKFKLILHPHRDVLHQNFRAVTVNSEGNETVVHLDQDSFFRGRVFGESTSHV
SAHIDEKNVLTATIILPDETYHIEPSWRHLEKKLPESSNKHMVAYKASDVKLSWEHHNEN
KNDGENHFVPGRCGYVKEGAELETDDDDDEIEEPEVEAYGGNETPHSERRSKRQADQYEY
TPTKTRCPLLLVADYRFFQEMGSSNTKTTISYLISLIDRVHKIYNDTIWQDRDVDGFRGM
GFVIKKILVHSEPTKVRGGEAHYNMIREKWDVRNLLENILKMATLSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2439.t4 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 241 | 344 | 4.5E-22 |
| 6 | g2439.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 201 | 217 | - |
| 7 | g2439.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 201 | 238 | - |
| 8 | g2439.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 222 | 238 | - |
| 3 | g2439.t4 | PANTHER | PTHR45702:SF6 | DISINTEGRIN AND METALLOPROTEINASE DOMAIN-CONTAINING PROTEIN 17 | 27 | 339 | 3.1E-64 |
| 4 | g2439.t4 | PANTHER | PTHR45702 | ADAM10/ADAM17 METALLOPEPTIDASE FAMILY MEMBER | 27 | 339 | 3.1E-64 |
| 2 | g2439.t4 | Pfam | PF01562 | Reprolysin family propeptide | 42 | 163 | 6.4E-9 |
| 1 | g2439.t4 | Pfam | PF13688 | Metallo-peptidase family M12 | 244 | 339 | 2.1E-6 |
| 5 | g2439.t4 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 242 | 339 | 5.78E-10 |
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 |
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.
