General information for g17252.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Enteropeptidase.
Parent gene
- The parent gene g17252 is located on chr_4: 12949406..12950963 (- 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_4 | g17252 | g17252.t4 | isoform | g17252.t4 | 12949406 | 12950963 |
| chr_4 | g17252 | g17252.t4 | exon | g17252.t4.exon1 | 12949406 | 12949430 |
| chr_4 | g17252 | g17252.t4 | cds | g17252.t4.CDS1 | 12949408 | 12949430 |
| chr_4 | g17252 | g17252.t4 | exon | g17252.t4.exon2 | 12949487 | 12950086 |
| chr_4 | g17252 | g17252.t4 | cds | g17252.t4.CDS2 | 12949487 | 12950086 |
| chr_4 | g17252 | g17252.t4 | exon | g17252.t4.exon3 | 12950196 | 12950431 |
| chr_4 | g17252 | g17252.t4 | cds | g17252.t4.CDS3 | 12950196 | 12950418 |
| chr_4 | g17252 | g17252.t4 | exon | g17252.t4.exon4 | 12950900 | 12950963 |
| chr_4 | g17252 | g17252.t4 | TSS | g17252.t4 | 12950974 | 12950974 |
| chr_4 | g17252 | g17252.t4 | TTS | g17252.t4 | NA | NA |
Sequences
>g17252.t4 Gene=g17252 Length=925
AACTTTCATCAAAAGTGAACGTAATTTTTTCTCTCTTCAGTTTTTTACTTGACGGAATAA
TTTGGTTTCATTTCAACATGATTAAATTTTGGCTTTTTTGGATATTTTTAATTTTTACAA
TTCCTTTTGTAATCTCAAATGAAGTCATTGTTACAATTGCCTTTAATGATGACTATAATG
GTGTTAAAGAAAGTTCACCAGGTGAATTTCCATTTCATGCTGCAATATATAGAAGTGACC
ACAGAGGTCTTAATTATACATGCGGTGCATCATTGATAACTGAATACAATCTTTTAACGG
CTGCTCATTGTTTTGAATACAGAGGTTTTTTCATAGAAAGTTATTCTGCAGTTCTTGGAG
TTTATGATTTGACCGACTTAGCAGAAGAATCAAGAGTTTACAGAAAATTTTCATCAATTG
ATATTCATGATGAATTTCAACTTATATCAAATGATGCTCTTAGCAATGCTGACATAGCTG
TTGTGACAATGAACAAAAAAGTTAAATTTTCTGATTTCATAAAACCTGTCAAACTTCCAT
CACCATACATGCAAATAATTGGTCTTATTGGGACAATTTTCGGTTATGGTCAAACATCCT
CAGGTTCACAACATACAAACAAACCACAAAAAGGTGAACTAAAAATTATTAGCAGTCATG
AATGTCAGAAGAAAGGTCAAGATTATCCTGGGATTTTATCATCAAGAAGTTTCTGTGCTG
GTGATAGTTTTGCAACTCCTTGTCAAGGCGATTCTGGTGGTGGATTAGTTATAAAAAATG
ATGAAGGTGAATTTGAAATTATTGGAATTGTTTCACATAGACTTTCTAAAAATGAATGCA
GTCCAAATGATTATGCAGTTTTTGTTGATGTCTCAAGATTTACAGTTTGGATTCAATCAA
AACTTCATCCTTGCTTTTCATCACC
>g17252.t4 Gene=g17252 Length=282
MIKFWLFWIFLIFTIPFVISNEVIVTIAFNDDYNGVKESSPGEFPFHAAIYRSDHRGLNY
TCGASLITEYNLLTAAHCFEYRGFFIESYSAVLGVYDLTDLAEESRVYRKFSSIDIHDEF
QLISNDALSNADIAVVTMNKKVKFSDFIKPVKLPSPYMQIIGLIGTIFGYGQTSSGSQHT
NKPQKGELKIISSHECQKKGQDYPGILSSRSFCAGDSFATPCQGDSGGGLVIKNDEGEFE
IIGIVSHRLSKNECSPNDYAVFVDVSRFTVWIQSKLHPCFSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g17252.t4 | CDD | cd00190 | Tryp_SPc | 35 | 275 | 2.55606E-56 |
| 9 | g17252.t4 | Gene3D | G3DSA:2.40.10.10 | - | 37 | 266 | 2.0E-52 |
| 10 | g17252.t4 | Gene3D | G3DSA:2.40.10.10 | - | 45 | 273 | 2.0E-52 |
| 2 | g17252.t4 | PANTHER | PTHR24260 | - | 37 | 276 | 1.2E-48 |
| 3 | g17252.t4 | PANTHER | PTHR24260:SF129 | MODULAR SERINE PROTEASE | 37 | 276 | 1.2E-48 |
| 6 | g17252.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 63 | 78 | 5.0E-8 |
| 4 | g17252.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 128 | 142 | 5.0E-8 |
| 5 | g17252.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 219 | 231 | 5.0E-8 |
| 1 | g17252.t4 | Pfam | PF00089 | Trypsin | 35 | 272 | 3.1E-40 |
| 12 | g17252.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 13 | g17252.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 14 | g17252.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 15 | g17252.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 11 | g17252.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 282 | - |
| 19 | g17252.t4 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 73 | 78 | - |
| 20 | g17252.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 18 | 277 | 23.491 |
| 18 | g17252.t4 | SMART | SM00020 | trypsin_2 | 33 | 272 | 2.3E-45 |
| 7 | g17252.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 28 | 276 | 5.45E-56 |
| 8 | g17252.t4 | SignalP_EUK | SignalP-TM | SignalP-TM | 1 | 20 | - |
| 17 | g17252.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | BP |
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