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.t13 isoform g16610.t13 10217630 10221173
chr_4 g16610 g16610.t13 exon g16610.t13.exon1 10217630 10217884
chr_4 g16610 g16610.t13 cds g16610.t13.CDS1 10217868 10217884
chr_4 g16610 g16610.t13 exon g16610.t13.exon2 10217946 10217985
chr_4 g16610 g16610.t13 cds g16610.t13.CDS2 10217946 10217985
chr_4 g16610 g16610.t13 exon g16610.t13.exon3 10220358 10220811
chr_4 g16610 g16610.t13 cds g16610.t13.CDS3 10220358 10220811
chr_4 g16610 g16610.t13 exon g16610.t13.exon4 10220863 10220955
chr_4 g16610 g16610.t13 cds g16610.t13.CDS4 10220863 10220955
chr_4 g16610 g16610.t13 exon g16610.t13.exon5 10221049 10221173
chr_4 g16610 g16610.t13 cds g16610.t13.CDS5 10221049 10221173
chr_4 g16610 g16610.t13 TTS g16610.t13 10221355 10221355
chr_4 g16610 g16610.t13 TSS g16610.t13 NA NA

Sequences

>g16610.t13 Gene=g16610 Length=967
ATGAAGATTTTAATTTTTGCTACTCTAATTTCTTTAGCAAATTGTTGGGTTAATTTGCCA
GATGAAGTAAAAACTGCAAAATCTATGGATGAACATCCAACGATTCAAAAGATTTTAAGA
GAAAAAAATCCAGAGTTGTTCAATGAAAATGGCGAATTTATTAATAAAACTCCATTCATA
GTTGGAGGATCGAATGCAACTTTAGGCCAATTTCCACATCAGGCGTTGCTTTTTACTTAT
GTTGACGCTAAATCTTTGTGGTGGCTCTTTGATTCGTTATAATTGGGTTTTGACAGCAGC
ACATTGTGTCTATATTCCTTACATAAAAGTAGCAGTATATCTTGGAATCATTGATTCTTA
TAATGGACCTGCACAATGGGGCGCAGATGTGACTTCAAAATCAGATGTAAAAATCCATTC
AAGTTACAATGACGAATTCCTTATCAACGATATTGCCATGATTTATTTAAGAACTGCAAC
TGAATCGCTTCTTAGTACTCCTTATGTCAAAACAATTACGTTGCCAATGAACCATACCAA
AACAAATTTAGATGGAATGAATGGAACTGCAAGTGGTTTTGGCAAGACAAGTGACATTAG
TGATTCATCGCAGTTTTTGAAATATGTTTCACTCTACATCACTTCCAATTTAGTTTGTAG
AAATCTCTATGGATCAGATGTTGTCAAAGATACAAACATTTGTGTTGCAACAACAACTAC
TGCGGCCACTTGCTCCGGAGATTCTGGAGGACCATTGACCACTGTTCTTAATGGAACAAA
TTATGTTATTGGAATCGTTTCTTTTGGTTTTAAAGATTCGTGTCAATTGGGTTATCCTGC
TGGATTCACAAGAGTTACGAGTTATCTTGGATGGATTGAAAGTCGAATTAACATGTCACC
AAAATCTGTTGCTTGCAATGTATTACTTTTGATCATCATTCAAATTTTTTTGTTTTTTCG
TAAATAA

>g16610.t13 Gene=g16610 Length=242
MLTLNLCGGSLIRYNWVLTAAHCVYIPYIKVAVYLGIIDSYNGPAQWGADVTSKSDVKIH
SSYNDEFLINDIAMIYLRTATESLLSTPYVKTITLPMNHTKTNLDGMNGTASGFGKTSDI
SDSSQFLKYVSLYITSNLVCRNLYGSDVVKDTNICVATTTTAATCSGDSGGPLTTVLNGT
NYVIGIVSFGFKDSCQLGYPAGFTRVTSYLGWIESRINMSPKSVACNVLLLIIIQIFLFF
RK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g16610.t13 CDD cd00190 Tryp_SPc 6 215 1.93059E-50
7 g16610.t13 Gene3D G3DSA:2.40.10.10 - 6 214 3.3E-51
8 g16610.t13 Gene3D G3DSA:2.40.10.10 - 94 209 3.3E-51
2 g16610.t13 PANTHER PTHR24260 - 6 219 7.5E-51
5 g16610.t13 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 8 23 3.9E-12
4 g16610.t13 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 67 81 3.9E-12
3 g16610.t13 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 162 174 3.9E-12
1 g16610.t13 Pfam PF00089 Trypsin 6 213 7.7E-38
9 g16610.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 223 -
11 g16610.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 224 240 -
10 g16610.t13 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 241 242 -
16 g16610.t13 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 18 23 -
17 g16610.t13 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 163 174 -
18 g16610.t13 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 218 24.185
15 g16610.t13 SMART SM00020 trypsin_2 1 213 4.7E-38
6 g16610.t13 SUPERFAMILY SSF50494 Trypsin-like serine proteases 6 218 3.53E-54
13 g16610.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
14 g16610.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 223 240 -

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