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_2 g8973 g8973.t2 TSS g8973.t2 34278612 34278612
chr_2 g8973 g8973.t2 isoform g8973.t2 34278698 34279809
chr_2 g8973 g8973.t2 exon g8973.t2.exon1 34278698 34279244
chr_2 g8973 g8973.t2 cds g8973.t2.CDS1 34278698 34279244
chr_2 g8973 g8973.t2 exon g8973.t2.exon2 34279368 34279523
chr_2 g8973 g8973.t2 cds g8973.t2.CDS2 34279368 34279523
chr_2 g8973 g8973.t2 exon g8973.t2.exon3 34279587 34279676
chr_2 g8973 g8973.t2 cds g8973.t2.CDS3 34279587 34279676
chr_2 g8973 g8973.t2 exon g8973.t2.exon4 34279736 34279809
chr_2 g8973 g8973.t2 cds g8973.t2.CDS4 34279736 34279809
chr_2 g8973 g8973.t2 TTS g8973.t2 34279905 34279905

Sequences

>g8973.t2 Gene=g8973 Length=867
ATGGAAATTACACGAAACGTCATCCTGTTATTCCTCTCGAATATTTTTTTATCGCAAGTG
CCTGTAGAGAGTAATTTGATTCAAAACAAACTAGAAAATATTTTGAACAACAATGTCACT
ACTCGCTTCACACGAATCGTGGGAGGAAGCAATGCAGCTGTAGCTCAATTTCCACATGCA
GCTGCTCTTTTTCTTTTCCTTAAAACTGGAGAATCATTTTGTGGCGGCTCGATAATTCAT
GATCAATATATCCTCACGGCAGCACATTGTTTAGATGATATTTTAAGAATTGAAGTGCAA
GCTGGAACACTTAATATTTTTCAGGGTGTACCAAGATATCGTGAAACAGTTCAGCCAAGC
CATACTCGTCAACATCATCAATATGATAGTGACACTTTGAGAAATGACATTGGTTTAATT
TATTTAATGCGACCAATTCCTTTTTCACCTGCTATTAGACCCATCGCACTTCCGTCAAGA
GTTACTGCTACAAGTACTTTCCAGGGTATGCTGACAACAGTAATTGGTTGGGGTCGATTT
GAAGATGCAGCAAAACAATCTTTGTCGGACACTCTGCAATTTGTGAGACTTCCAATAGTG
CAAGATCGACAATGCACAACAGTTTACAATCAATTCTATAATTTTTTTGATACTCGAACA
AATATTTGTGCAAGCGGTAGTCACGCAAGATCGACTTGTAATGGTGATAGTGGAGGTTCT
ATGACAATCGACACAAACGGCCGTCCTACTCTGATTGGTATTGTTTCTTTTGGAAGTTCC
ACATGTGAAGGAGGTCTTCCAGTTGCGATGACACGCGTTACTGCCTATCTTGATTGGATT
GCTGCAAATTCACTTGTACGCTGCTAA

>g8973.t2 Gene=g8973 Length=288
MEITRNVILLFLSNIFLSQVPVESNLIQNKLENILNNNVTTRFTRIVGGSNAAVAQFPHA
AALFLFLKTGESFCGGSIIHDQYILTAAHCLDDILRIEVQAGTLNIFQGVPRYRETVQPS
HTRQHHQYDSDTLRNDIGLIYLMRPIPFSPAIRPIALPSRVTATSTFQGMLTTVIGWGRF
EDAAKQSLSDTLQFVRLPIVQDRQCTTVYNQFYNFFDTRTNICASGSHARSTCNGDSGGS
MTIDTNGRPTLIGIVSFGSSTCEGGLPVAMTRVTAYLDWIAANSLVRC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g8973.t2 CDD cd00190 Tryp_SPc 46 283 1.27122E-68
9 g8973.t2 Gene3D G3DSA:2.40.10.10 - 39 284 1.4E-62
2 g8973.t2 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 30 283 1.5E-61
3 g8973.t2 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 30 283 1.5E-61
6 g8973.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 75 90 3.1E-12
4 g8973.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 132 146 3.1E-12
5 g8973.t2 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 230 242 3.1E-12
1 g8973.t2 Pfam PF00089 Trypsin 46 280 4.2E-47
11 g8973.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 24 -
12 g8973.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
13 g8973.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 17 -
14 g8973.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 24 -
10 g8973.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 25 288 -
17 g8973.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 85 90 -
18 g8973.t2 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 231 242 -
19 g8973.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 46 285 27.379
16 g8973.t2 SMART SM00020 trypsin_2 45 280 1.8E-65
7 g8973.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 32 282 9.08E-70
8 g8973.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 24 -

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.

Raw TPM values