General information for g17242.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Prothrombin.
Parent gene
- The parent gene g17242 is located on chr_4: 12918105..12919988 (- 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 | g17242 | g17242.t1 | isoform | g17242.t1 | 12918105 | 12919988 |
| chr_4 | g17242 | g17242.t1 | exon | g17242.t1.exon1 | 12918105 | 12918385 |
| chr_4 | g17242 | g17242.t1 | cds | g17242.t1.CDS1 | 12918105 | 12918385 |
| chr_4 | g17242 | g17242.t1 | exon | g17242.t1.exon2 | 12918710 | 12919072 |
| chr_4 | g17242 | g17242.t1 | cds | g17242.t1.CDS2 | 12918710 | 12919072 |
| chr_4 | g17242 | g17242.t1 | exon | g17242.t1.exon3 | 12919130 | 12919738 |
| chr_4 | g17242 | g17242.t1 | cds | g17242.t1.CDS3 | 12919130 | 12919738 |
| chr_4 | g17242 | g17242.t1 | exon | g17242.t1.exon4 | 12919796 | 12919988 |
| chr_4 | g17242 | g17242.t1 | cds | g17242.t1.CDS4 | 12919796 | 12919988 |
| chr_4 | g17242 | g17242.t1 | TSS | g17242.t1 | NA | NA |
| chr_4 | g17242 | g17242.t1 | TTS | g17242.t1 | NA | NA |
Sequences
>g17242.t1 Gene=g17242 Length=1446
ATGCCATCAACATTTTCAATACGAACTGTCGCCACATGCGGTATATCAAAATTTGAAAGA
AAAAATTCTGAAGGATTAATTATAAATGGAGCTGAAAGTAAGCCAGGTGAATGGCCTTGG
TATGTTTCAATCTTCAGAAGAAGAGAATTTATTTGTGGCTCATCTTTAATTTCTGATTTG
CATTTGTTGTCTGCTGCTCATTGTTTTGAATATTTTGGAAGTTATTACGAACTCAATGAT
TATTTTGTTCTTCTTGGTCGATTTAATTTGGAAGACGACAATGAGAAATTTTTTGTCAGC
CGAAATTTTTCGGCAATTTTTCTTCATCCTAAATATAATCAAACTGCCGAAGCTTATCGT
AGTAATTCTGACATTTCTATGATTCGAATGTCACAAAAAGTTCAATTTTCTGATTTCATT
CAACCTGTTTGTCTTCCTGAATCAAATTCTAATTCTGCAAATCTTTATGGAACTGTTGTT
GGTTATGGCAAAAGTGAAACTGATAAAATTCATGAAATGACACCAAGACAAGCTCAAATG
TATTCAATTAGTTTTAGTGAGTGTTTATTGAAAGCTCCAATATATTCTTATATTGTATCA
AGTAGAAGCATCTGTGTAGGAGGCACAAATTCAATTCCATGTTTAGGAGATTCTGGCGGT
GGATTTTTTGTTAAAAATAGCAAAAGCGGACAATATGAAGTGAAAGGAATTGTGTCACAA
GCTAAACGAACTAATGGTTGTGATCCAAAAGATTTTGTTGCTTTTGTTGATGTCGCAAAA
TTCATTGATTGGATTCAAATACAAATGAAAGATGGAATAAATGCAAAAATAAAGACAACA
AAAGTTAAAGAAAAAGTCAATCTTTGTGAATCACCGTCATGTGGACCAAATTCAAAATGT
TCTGCTCCTTTTGGTTCTATCATTTGTACTTGTCTTGATGATGCCATTGGAAATCCACCA
AATTGTGAAAAACCAGAATGTTTTGATGATTTTGATTGCGATGAAAATCGAGCTTGTTTT
AAGAATAAATGCAAAAATTTATGTGAAATAAAAGCATGCAAAGAAAATGAAAAATGTGAA
ATGAAAAATCATAAAAGAGAATGCTTTTCTAAAAACTGTCTAATTGGAAATCTTTTAGTA
AATAATCAATGTATGGAAAATCTTAATTTGGTTACTGGAACAATTAGTTCATCACGTTGT
TGTGAATGGCTTTCTGGTGATATTCCAATTGATCGAAATCTTCAAATATTCGGAGTCAAT
ATTGGAACAAAAATTCAAACAGAAACAGCTGTAATAAATCCAAAATATCAAAGTGAAGAA
ATTGAAGAATTTGCTATATTTAACTATTTGTGTGGTGACAAACTTTGTGATCTTAAAAGC
AACATTAAAAATCTTCCAATTCAAGTAAATAAAATTTTTCCTAATCTTTTGCTTATTTTG
CAATAA
>g17242.t1 Gene=g17242 Length=481
MPSTFSIRTVATCGISKFERKNSEGLIINGAESKPGEWPWYVSIFRRREFICGSSLISDL
HLLSAAHCFEYFGSYYELNDYFVLLGRFNLEDDNEKFFVSRNFSAIFLHPKYNQTAEAYR
SNSDISMIRMSQKVQFSDFIQPVCLPESNSNSANLYGTVVGYGKSETDKIHEMTPRQAQM
YSISFSECLLKAPIYSYIVSSRSICVGGTNSIPCLGDSGGGFFVKNSKSGQYEVKGIVSQ
AKRTNGCDPKDFVAFVDVAKFIDWIQIQMKDGINAKIKTTKVKEKVNLCESPSCGPNSKC
SAPFGSIICTCLDDAIGNPPNCEKPECFDDFDCDENRACFKNKCKNLCEIKACKENEKCE
MKNHKRECFSKNCLIGNLLVNNQCMENLNLVTGTISSSRCCEWLSGDIPIDRNLQIFGVN
IGTKIQTETAVINPKYQSEEIEEFAIFNYLCGDKLCDLKSNIKNLPIQVNKIFPNLLLIL
Q
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g17242.t1 | CDD | cd00190 | Tryp_SPc | 27 | 266 | 1.74463E-50 |
| 8 | g17242.t1 | Gene3D | G3DSA:2.40.10.10 | - | 27 | 257 | 2.7E-51 |
| 9 | g17242.t1 | Gene3D | G3DSA:2.40.10.10 | - | 39 | 265 | 2.7E-51 |
| 2 | g17242.t1 | PANTHER | PTHR24260 | - | 19 | 299 | 2.8E-57 |
| 3 | g17242.t1 | PANTHER | PTHR24260:SF110 | GH19262P | 19 | 299 | 2.8E-57 |
| 6 | g17242.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 53 | 68 | 1.1E-6 |
| 5 | g17242.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 120 | 134 | 1.1E-6 |
| 4 | g17242.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 211 | 223 | 1.1E-6 |
| 1 | g17242.t1 | Pfam | PF00089 | Trypsin | 27 | 265 | 2.3E-39 |
| 11 | g17242.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 63 | 68 | - |
| 13 | g17242.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 27 | 270 | 24.854 |
| 12 | g17242.t1 | SMART | SM00020 | trypsin_2 | 26 | 265 | 9.8E-43 |
| 7 | g17242.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 9 | 270 | 2.89E-59 |
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.
