Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin.

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 g15484 g15484.t3 TSS g15484.t3 5609001 5609001
chr_4 g15484 g15484.t3 isoform g15484.t3 5609032 5610514
chr_4 g15484 g15484.t3 exon g15484.t3.exon1 5609032 5609340
chr_4 g15484 g15484.t3 exon g15484.t3.exon2 5609678 5610112
chr_4 g15484 g15484.t3 cds g15484.t3.CDS1 5609788 5610112
chr_4 g15484 g15484.t3 exon g15484.t3.exon3 5610171 5610290
chr_4 g15484 g15484.t3 cds g15484.t3.CDS2 5610171 5610290
chr_4 g15484 g15484.t3 exon g15484.t3.exon4 5610348 5610514
chr_4 g15484 g15484.t3 cds g15484.t3.CDS3 5610348 5610514
chr_4 g15484 g15484.t3 TTS g15484.t3 5610474 5610474

Sequences

>g15484.t3 Gene=g15484 Length=1031
ATGTCTCGAAAATTTTTTTTTATAATTTTAGTCACATTTTTTAAAATTTGTTTCTGTTAT
GTTGAAATTCCCTCACAATTTCGTGATGCAAAATCACCAATGGCATCAGAATTTAATTTG
GACATAATTCAAATGAATTTTCCTGGTTTATATGATGATGTTTTTGCTGGAATTGAAGGA
AGAATTGCTGGTGGTGTTGCAGCAGACGCACGTCAGTTTCCTTATCAAGGTTTGATGTAC
ATGGTGGATAATAAAAACGCAACATTCATTTGTGGTGGAAGTTTGATTACTCATAGCTTT
TTATTGACGCTCATTGTCTCTATCAATTTGAAGAAATTTCAGTCTTCCTTGGTGTTACAA
ATCGTGTTTCAGGTCCAGCAGCATTTAGTCAAGATATAACAGACAAAAGTCATATAATCA
TGCACAATCTTTACAATCCAACTGGTCACGTTAATGATATTGGTTTAATATATTTAAGCA
CACTTACAGCTGAGCATTTTGACAATAAAAGAATTTCCTTAATTACTCTACCAACTAGAA
ATGATATTGATGTAAATTTAGTTGGAATGGAAGCAACAGTTGCTGGATTCGGTTCAACTT
CTGACACAAACAAAGCTTCTGAAATTCTTAGATACGTCACAATGCCAATCATAAAGAATA
GTATGTGTAAAATGACATTTGGAACTTTTATTAAAGCTACAAATTTGTGCATGAGTGGTC
AAGGTGGAAGAAGTGTTTGTTCGGGTGATTCCGGTAGTCCACTAACAGTCGAATTATTAC
CAGGAAAAATTGTCCAAGTAGGAATAGTTTCTTTTGGTCACAAACATGGATGCACTTTAG
GACATCCAGGAGTGTTTACACGAGTGACAAGTTATCTTGATTGGATAGAAGGACATGTAG
GAAAGATGACAATTGAAGGAGCAATAAATAATTCACCAAATACAACTGACAGTAATAAAA
ATAGTGCTAAATGTGTTCATAGTTTGAATATATTCTCAATTTTATTATTGATTATTTTTA
AATTTTTTTAG

>g15484.t3 Gene=g15484 Length=203
MHNLYNPTGHVNDIGLIYLSTLTAEHFDNKRISLITLPTRNDIDVNLVGMEATVAGFGST
SDTNKASEILRYVTMPIIKNSMCKMTFGTFIKATNLCMSGQGGRSVCSGDSGSPLTVELL
PGKIVQVGIVSFGHKHGCTLGHPGVFTRVTSYLDWIEGHVGKMTIEGAINNSPNTTDSNK
NSAKCVHSLNIFSILLLIIFKFF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g15484.t3 CDD cd00190 Tryp_SPc 1 159 5.11338E-41
6 g15484.t3 Gene3D G3DSA:2.40.10.10 - 1 157 5.5E-38
5 g15484.t3 Gene3D G3DSA:2.40.10.10 - 35 150 5.5E-38
2 g15484.t3 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 1 159 2.5E-40
3 g15484.t3 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 1 159 2.5E-40
1 g15484.t3 Pfam PF00089 Trypsin 2 156 1.7E-26
8 g15484.t3 ProSitePatterns PS00135 Serine proteases, trypsin family, serine active site. 105 116 -
10 g15484.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 161 18.281
9 g15484.t3 SMART SM00020 trypsin_2 1 156 2.9E-12
4 g15484.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 1 161 3.09E-42

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