General information for g2439.t3
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.t3 | TSS | g2439.t3 | 18004318 | 18004318 |
| chr_3 | g2439 | g2439.t3 | isoform | g2439.t3 | 18004381 | 18005549 |
| chr_3 | g2439 | g2439.t3 | exon | g2439.t3.exon1 | 18004381 | 18004438 |
| chr_3 | g2439 | g2439.t3 | cds | g2439.t3.CDS1 | 18004381 | 18004438 |
| chr_3 | g2439 | g2439.t3 | exon | g2439.t3.exon2 | 18004556 | 18005307 |
| chr_3 | g2439 | g2439.t3 | cds | g2439.t3.CDS2 | 18004556 | 18005307 |
| chr_3 | g2439 | g2439.t3 | exon | g2439.t3.exon3 | 18005364 | 18005549 |
| chr_3 | g2439 | g2439.t3 | cds | g2439.t3.CDS3 | 18005364 | 18005549 |
| chr_3 | g2439 | g2439.t3 | TTS | g2439.t3 | 18005673 | 18005673 |
Sequences
>g2439.t3 Gene=g2439 Length=996
ATGGCGAAAATTTTCTTTGCTACATTTCTTGTATTTCTTCACTTATTTGAAGCTCAAACC
CAATTGCATAAAAATTTAAAATACTATGAAACATTACATGCAGATGAAATTACACATAAA
ATTGTCAAAAGGGGAATAAAACCAAGTATCAATTTGCACAATAAAATTAGAGAAGTGGAA
TTTACTGCATTAGGAAAAAAATTCAAATTGATTCTTCATCCACACAGGGATGTTTTGCAT
CAAAATTTTCGTGCAGTTACAGTAAATTCGGAAGGTAATGAAACAGTCGTTCATCTCGAT
CAAGATAGCTTTTTCAGAGGTCGTGTATTTGGAGAGAGTACATCACATGTTTCTGCTCAT
ATTGATGAGAAAAATGTACTCACTGCTACAATAATTTTACCTGATGAAACTTATCATATT
GAACCATCTTGGAGACATCTTGAGAAAAAACTCCCAGAAAGTAGCAACAAACATATGGTT
GCTTATAAAGCGTCAGACGTTAAATTGAGTTGGGAGCATCACAATGAAAATAAAAATGAT
GGAGAGAATCATTTTGTTCCTGGCAGATGTGGATATGTTAAAGAAGGTGCTGAACTTGAA
ACAGATGATGATGATGATGAAATTGAAGAACCAGAAGTTGAAGCATATGGTGGAAACGAA
ACACCGCATAGTGAAAGAAGATCAAAAAGACAAGCTGATCAATATGAATACACTCCAACA
AAAACACGATGTCCTCTTTTACTCGTTGCTGATTATCGTTTTTTCCAAGAAATGGGAAGT
TCAAATACAAAAACTACAATTTCTTATTTGATAAGTCTAATTGATCGTGTTCATAAAATT
TATAATGACACAATCTGGCAAGATCGAGATGTAGATGGATTTCGCGGAATGGGTTTTGTC
ATCAAAAAAATTTTAGTTCATAGTGAGCCAACAAAAGTTAGAGGTGGTGAAGCTCATTAC
AACATGATCCGAGAAAAATGGGATGTAAGAAATTTG
>g2439.t3 Gene=g2439 Length=332
MAKIFFATFLVFLHLFEAQTQLHKNLKYYETLHADEITHKIVKRGIKPSINLHNKIREVE
FTALGKKFKLILHPHRDVLHQNFRAVTVNSEGNETVVHLDQDSFFRGRVFGESTSHVSAH
IDEKNVLTATIILPDETYHIEPSWRHLEKKLPESSNKHMVAYKASDVKLSWEHHNENKND
GENHFVPGRCGYVKEGAELETDDDDDEIEEPEVEAYGGNETPHSERRSKRQADQYEYTPT
KTRCPLLLVADYRFFQEMGSSNTKTTISYLISLIDRVHKIYNDTIWQDRDVDGFRGMGFV
IKKILVHSEPTKVRGGEAHYNMIREKWDVRNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2439.t3 | Gene3D | G3DSA:3.40.390.10 | Collagenase (Catalytic Domain) | 238 | 332 | 1.4E-20 |
| 5 | g2439.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 198 | 214 | - |
| 7 | g2439.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 198 | 236 | - |
| 6 | g2439.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 219 | 236 | - |
| 2 | g2439.t3 | PANTHER | PTHR45702:SF6 | DISINTEGRIN AND METALLOPROTEINASE DOMAIN-CONTAINING PROTEIN 17 | 24 | 332 | 2.9E-62 |
| 3 | g2439.t3 | PANTHER | PTHR45702 | ADAM10/ADAM17 METALLOPEPTIDASE FAMILY MEMBER | 24 | 332 | 2.9E-62 |
| 1 | g2439.t3 | Pfam | PF01562 | Reprolysin family propeptide | 39 | 160 | 6.7E-9 |
| 11 | g2439.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 12 | g2439.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g2439.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 13 | - |
| 14 | g2439.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 10 | g2439.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 332 | - |
| 4 | g2439.t3 | SUPERFAMILY | SSF55486 | Metalloproteases (zincins), catalytic domain | 239 | 322 | 3.01E-9 |
| 8 | g2439.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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.
