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.t11 TSS g15013.t11 3513859 3513859
chr_4 g15013 g15013.t11 isoform g15013.t11 3513904 3515116
chr_4 g15013 g15013.t11 exon g15013.t11.exon1 3513904 3514541
chr_4 g15013 g15013.t11 cds g15013.t11.CDS1 3513904 3514541
chr_4 g15013 g15013.t11 exon g15013.t11.exon2 3514600 3514687
chr_4 g15013 g15013.t11 cds g15013.t11.CDS2 3514600 3514687
chr_4 g15013 g15013.t11 exon g15013.t11.exon3 3515074 3515116
chr_4 g15013 g15013.t11 cds g15013.t11.CDS3 3515074 3515115
chr_4 g15013 g15013.t11 TTS g15013.t11 3515192 3515192

Sequences

>g15013.t11 Gene=g15013 Length=769
ATGTTTAAATTTATCGTTCTTTTGGGCCTTGTGTCATCAGCACTCTGTGCCAGTCTTTCA
TCACCTGCCATTGATCCAGAATGGGAAGGTTTCATTGTAGGAGGAAGCACAGCTTCAGCT
GGTCAATTCCCACATCAAGTTTCACTTAGATCATCAGGAAATGCTCATTTCTGTGGTGGT
TTCATTATTAACAATCGCTGGGTTGGATCAGCTGCTCACTGCACAGTTGGACGTACTGCC
GCAAACACAATCTCAGTTGTTGGTACCAACAGTCGTACATCAGGTGGTGTTGCTCACAGT
ACATCACGCATTGTCAACCATCCAAGTTACAATGGCAACACATTGGCCAATGATATTTCA
ATGGTTTTCACTGCATCAACAATTACCTTCAATAACTTGGTTCAACCAATCACTCTTGGA
TCAGCTCATGTTGGCGGTGGTGTTTCAGCAACTGCATCAGGTTGGGGTCAAACATCACAT
CCAGGCTCAGCTGCTGCCAATTTGCAATTCTTAACTAAACCAACTTTGACAAATGCTGAC
TGCCGTGCTCGTCACTCTGCTGGAAATGCTGCCCGTGTCTTTGACAACACTATCTGTACA
TTCTTGAGAGCAGGAGCTGGTATGTGCATGGGTGACAGTGGTGGCCCATTGATTGCTGGT
GGTACAGTTATTGGTGCAGTTTCATGGGGTATTGCATGCGCTCAAGGATTCCCTGATGTT
TTCGCTTTTTTAAATCTAGCATCGCACATGGATGATCAACCAAATGTAA

>g15013.t11 Gene=g15013 Length=256
MFKFIVLLGLVSSALCASLSSPAIDPEWEGFIVGGSTASAGQFPHQVSLRSSGNAHFCGG
FIINNRWVGSAAHCTVGRTAANTISVVGTNSRTSGGVAHSTSRIVNHPSYNGNTLANDIS
MVFTASTITFNNLVQPITLGSAHVGGGVSATASGWGQTSHPGSAAANLQFLTKPTLTNAD
CRARHSAGNAARVFDNTICTFLRAGAGMCMGDSGGPLIAGGTVIGAVSWGIACAQGFPDV
FAFLNLASHMDDQPNV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g15013.t11 CDD cd00190 Tryp_SPc 32 242 8.49881E-67
11 g15013.t11 Gene3D G3DSA:2.40.10.10 - 33 242 5.6E-53
10 g15013.t11 Gene3D G3DSA:2.40.10.10 - 44 136 5.6E-53
2 g15013.t11 PANTHER PTHR24276 POLYSERASE-RELATED 30 248 2.3E-51
3 g15013.t11 PANTHER PTHR24276:SF89 IP07603P 30 248 2.3E-51
6 g15013.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 59 74 3.9E-10
4 g15013.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 114 128 3.9E-10
5 g15013.t11 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 206 218 3.9E-10
1 g15013.t11 Pfam PF00089 Trypsin 32 242 7.0E-47
13 g15013.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
14 g15013.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
15 g15013.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 11 -
16 g15013.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
12 g15013.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 256 -
20 g15013.t11 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 207 218 -
21 g15013.t11 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 32 256 25.631
19 g15013.t11 SMART SM00020 trypsin_2 31 247 3.9E-52
7 g15013.t11 SUPERFAMILY SSF50494 Trypsin-like serine proteases 5 242 3.85E-59
9 g15013.t11 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
18 g15013.t11 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 23 -
8 g15013.t11 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. There were no conditions that were differentially expressed