Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin-2.

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 g15013 g15013.t3 TSS g15013.t3 3513859 3513859
chr_4 g15013 g15013.t3 isoform g15013.t3 3513904 3514616
chr_4 g15013 g15013.t3 exon g15013.t3.exon1 3513904 3514541
chr_4 g15013 g15013.t3 cds g15013.t3.CDS1 3513904 3514541
chr_4 g15013 g15013.t3 exon g15013.t3.exon2 3514600 3514616
chr_4 g15013 g15013.t3 cds g15013.t3.CDS2 3514600 3514615
chr_4 g15013 g15013.t3 TTS g15013.t3 3515192 3515192

Sequences

>g15013.t3 Gene=g15013 Length=655
ATGTTTAAATTTATCGTTCTTTTGGGCCTTGTGTCATCAGCACTCTGTGCCAGTCTTTCA
TCACCTGCCATTGATCCAGAATGGGAAGGTTTCATTGTAGGAGGAAGCACAGCTTCAGCT
GGTCAATTCCCACATCAAGTTTCACTTAGATCATCAGGAAATGCTCATTTCTGTGGTGGT
TTCATTATTAACAATCGCTGGGTTGGATCAGCTGCTCACTGCACAGTTGGACGTACTGCC
GCAAACACAATCTCAGTTGTTGGTACCAACAGTCGTACATCAGGTGGTGTTGCTCACAGT
ACATCACGCATTGTCAACCATCCAAGTTACAATGGCAACACATTGGCCAATGATATTTCA
ATGGTTTTCACTGCATCAACAATTACCTTCAATAACTTGGTTCAACCAATCACTCTTGGA
TCAGCTCATGTTGGCGGTGGTGTTTCAGCAACTGCATCAGGTTGGGGTCAAACATCACAT
CCAGGCTCAGCTGCTGCCAATTTGCAATTCTTAACTAAACCAACTTTGACAAATGCTGAC
TGCCGTGCTCGTCACTCTGCTGGAAATGCTGCCCGTGTCTTTGACAACACTATCTGTACA
TTCTTGAGAGCAGGAGCTGGTATGTGCATGGGTGACAGTGGTGGCCCATTGATTG

>g15013.t3 Gene=g15013 Length=218
MFKFIVLLGLVSSALCASLSSPAIDPEWEGFIVGGSTASAGQFPHQVSLRSSGNAHFCGG
FIINNRWVGSAAHCTVGRTAANTISVVGTNSRTSGGVAHSTSRIVNHPSYNGNTLANDIS
MVFTASTITFNNLVQPITLGSAHVGGGVSATASGWGQTSHPGSAAANLQFLTKPTLTNAD
CRARHSAGNAARVFDNTICTFLRAGAGMCMGDSGGPLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g15013.t3 CDD cd00190 Tryp_SPc 32 218 5.8316E-58
10 g15013.t3 Gene3D G3DSA:2.40.10.10 - 32 218 4.7E-45
11 g15013.t3 Gene3D G3DSA:2.40.10.10 - 44 136 4.7E-45
2 g15013.t3 PANTHER PTHR24276 POLYSERASE-RELATED 30 218 8.8E-43
3 g15013.t3 PANTHER PTHR24276:SF89 IP07603P 30 218 8.8E-43
6 g15013.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 59 74 2.7E-10
4 g15013.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 114 128 2.7E-10
5 g15013.t3 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 206 218 2.7E-10
1 g15013.t3 Pfam PF00089 Trypsin 32 218 6.9E-40
13 g15013.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
14 g15013.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
15 g15013.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 11 -
16 g15013.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
12 g15013.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 218 -
20 g15013.t3 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 207 218 -
21 g15013.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 32 218 22.83
19 g15013.t3 SMART SM00020 trypsin_2 31 218 3.6E-32
7 g15013.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 5 218 4.76E-52
9 g15013.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
18 g15013.t3 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 23 -
8 g15013.t3 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 23 -

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