Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin BI.

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_4 g17172 g17172.t4 TSS g17172.t4 12708180 12708180
chr_4 g17172 g17172.t4 isoform g17172.t4 12708208 12709231
chr_4 g17172 g17172.t4 exon g17172.t4.exon1 12708208 12708387
chr_4 g17172 g17172.t4 cds g17172.t4.CDS1 12708208 12708387
chr_4 g17172 g17172.t4 exon g17172.t4.exon2 12708447 12708528
chr_4 g17172 g17172.t4 cds g17172.t4.CDS2 12708447 12708528
chr_4 g17172 g17172.t4 exon g17172.t4.exon3 12708584 12709231
chr_4 g17172 g17172.t4 cds g17172.t4.CDS3 12708584 12709050
chr_4 g17172 g17172.t4 TTS g17172.t4 12709311 12709311

Sequences

>g17172.t4 Gene=g17172 Length=910
ATGAAGTTCTTAATTCTTTTGGTCACAGTTGTTGGATTTGTAGCAGCAGAGCAAGTTGAT
TGGTCAAATGTTCGTCCAATTCATGAAGTCTTGCAAGACACATTAACTAGAAGTGCTGTT
ACAGCTGAAAGACGTATTGTCAATGGACAACCAGCTCAACCACATCAATTTCCATATCAA
GTTGCTTTGCTAATCAGCACATTGACAGGAACTTCACTCTGTGGTGGATCAGTTATCAGC
ACAAATGCCGTCCTTACAGCTGCTCATTGCACTGCTCCATTTGCTCAAAGTTATTTGATT
ATTGCTGGTGCATATAATAGAGTACAAATCGAACCAAACCAACAACGCAGAACAGAACCA
GCAAGCAACTTTATTCAACATCCTGAATATGGCAGTATTCGTTTGATCAATGATATTGCT
GTCATTCGTGTCACTCAAGCTTTTACTTTTAATGAATTTGTACAGCCAGTTCAAATTGCC
TCAAATCCAAATGAACTTCATGTTGGTGCAAGAGTTGATGTATCAGGATTTGGAAGATTC
AGTGATAGCTTGCCAAATACATCAGAAGTTGTTCTATACACTACTAAGACTGTCATTACC
AATGCTCAATGTTTGTCATTCTTCCCTGCCAATGTTATTGCAACAACAATTTGTGCTGTT
GGTGATCCAGAAATTAATAACTCAGTTTGTAATGGTGATTCAGGTATGATTAGAAAATGT
GTCATTTAAGCAGTTTATTAAGAATATTTTTTATAAAGGTGGTCCATTAACAATTCAACG
CAATGAAGGTTCATACCAAGTTGGTGTTGTTTCATTTGGAAGTGCTCAAGGATGTGAAGC
TGGCTTCCCAGATGGTTATGCCCGTGTTTCCCATTTCAATGAATGGATTCGTACTACAGC
TGGTTTCTAA

>g17172.t4 Gene=g17172 Length=242
MKFLILLVTVVGFVAAEQVDWSNVRPIHEVLQDTLTRSAVTAERRIVNGQPAQPHQFPYQ
VALLISTLTGTSLCGGSVISTNAVLTAAHCTAPFAQSYLIIAGAYNRVQIEPNQQRRTEP
ASNFIQHPEYGSIRLINDIAVIRVTQAFTFNEFVQPVQIASNPNELHVGARVDVSGFGRF
SDSLPNTSEVVLYTTKTVITNAQCLSFFPANVIATTICAVGDPEINNSVCNGDSGMIRKC
VI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g17172.t4 CDD cd00190 Tryp_SPc 46 235 3.35096E-50
9 g17172.t4 Gene3D G3DSA:2.40.10.10 - 38 240 4.2E-42
2 g17172.t4 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 36 235 2.8E-58
3 g17172.t4 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 36 235 2.8E-58
6 g17172.t4 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 75 90 9.0E-7
5 g17172.t4 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 134 148 9.0E-7
4 g17172.t4 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 227 239 9.0E-7
1 g17172.t4 Pfam PF00089 Trypsin 46 235 3.7E-40
11 g17172.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
12 g17172.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g17172.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
14 g17172.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
10 g17172.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 242 -
17 g17172.t4 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 85 90 -
18 g17172.t4 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 46 242 19.41
16 g17172.t4 SMART SM00020 trypsin_2 45 242 8.7E-28
7 g17172.t4 SUPERFAMILY SSF50494 Trypsin-like serine proteases 23 235 1.17E-49
8 g17172.t4 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -

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