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 g16610 g16610.t14 isoform g16610.t14 10217630 10221173
chr_4 g16610 g16610.t14 exon g16610.t14.exon1 10217630 10217884
chr_4 g16610 g16610.t14 exon g16610.t14.exon2 10217938 10217989
chr_4 g16610 g16610.t14 exon g16610.t14.exon3 10220358 10220811
chr_4 g16610 g16610.t14 cds g16610.t14.CDS1 10220520 10220811
chr_4 g16610 g16610.t14 exon g16610.t14.exon4 10220863 10220955
chr_4 g16610 g16610.t14 cds g16610.t14.CDS2 10220863 10220955
chr_4 g16610 g16610.t14 exon g16610.t14.exon5 10221049 10221173
chr_4 g16610 g16610.t14 cds g16610.t14.CDS3 10221049 10221173
chr_4 g16610 g16610.t14 TTS g16610.t14 10221355 10221355
chr_4 g16610 g16610.t14 TSS g16610.t14 NA NA

Sequences

>g16610.t14 Gene=g16610 Length=979
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTATTTATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGTTTTG
ACAGTAAGCAGCACATTGTGTCTATATTCCTTACATAAAAGTAGCAGTATATCTTGGAAT
CATTGATTCTTATAATGGACCTGCACAATGGGGCGCAGATGTGACTTCAAAATCAGATGT
AAAAATCCATTCAAGTTACAATGACGAATTCCTTATCAACGATATTGCCATGATTTATTT
AAGAACTGCAACTGAATCGCTTCTTAGTACTCCTTATGTCAAAACAATTACGTTGCCAAT
GAACCATACCAAAACAAATTTAGATGGAATGAATGGAACTGCAAGTGGTTTTGGCAAGAC
AAGTGACATTAGTGATTCATCGCAGTTTTTGAAATATGTTTCACTCTACATCACTTCCAA
TTTAGTTTGTAGAAATCTCTATGGATCAGATGTTGTCAAAGATACAAACATTTGTGTTGC
AACAACAACTACTGCGGCCACTTGCTCCGGAGATTCTGGAGGACCATTGACCACTGTTCT
TAATGGAACAAATTATGTTATTGGAATCGTTTCTTTTGGTTTTAAAGATTCGTGTCAATT
GGGTTATCCTGCTGGATTCACAAGAGTTACGAGTTATCTTGGATGGATTGAAAGTCGAAT
TAACATGTCACCAAAATCTGTTGCTTGCAATGTATTACTTTTGATCATCATTCAAATTTT
TTTGTTTTTTCGTAAATAA

>g16610.t14 Gene=g16610 Length=169
MIYLRTATESLLSTPYVKTITLPMNHTKTNLDGMNGTASGFGKTSDISDSSQFLKYVSLY
ITSNLVCRNLYGSDVVKDTNICVATTTTAATCSGDSGGPLTTVLNGTNYVIGIVSFGFKD
SCQLGYPAGFTRVTSYLGWIESRINMSPKSVACNVLLLIIIQIFLFFRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16610.t14 Gene3D G3DSA:2.40.10.10 - 2 154 2.4E-31
2 g16610.t14 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 13 147 1.1E-35
3 g16610.t14 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 13 147 1.1E-35
1 g16610.t14 Pfam PF00089 Trypsin 13 140 2.0E-21
6 g16610.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 150 -
8 g16610.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 151 167 -
7 g16610.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 168 169 -
10 g16610.t14 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 90 101 -
12 g16610.t14 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 145 15.621
11 g16610.t14 SMART SM00020 trypsin_2 3 140 1.7E-6
4 g16610.t14 SUPERFAMILY SSF50494 Trypsin-like serine proteases 12 145 2.12E-34
9 g16610.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 150 167 -

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