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 g15485 g15485.t6 TSS g15485.t6 5611121 5611121
chr_4 g15485 g15485.t6 isoform g15485.t6 5611152 5612402
chr_4 g15485 g15485.t6 exon g15485.t6.exon1 5611152 5611455
chr_4 g15485 g15485.t6 cds g15485.t6.CDS1 5611152 5611455
chr_4 g15485 g15485.t6 exon g15485.t6.exon2 5611587 5612022
chr_4 g15485 g15485.t6 cds g15485.t6.CDS2 5611587 5612020
chr_4 g15485 g15485.t6 exon g15485.t6.exon3 5612178 5612252
chr_4 g15485 g15485.t6 exon g15485.t6.exon4 5612311 5612402
chr_4 g15485 g15485.t6 TTS g15485.t6 5612514 5612514

Sequences

>g15485.t6 Gene=g15485 Length=907
ATGAAATTATTTATTTTTTTAATTTTTTCTATAAGTTCTGCACTTTGTCTTGTGCCAGTG
AAAGAAGGATGGAAATTAGTAAAATCACCTTTAGATAGTCCACATTTTCATGACGTTATG
GAAAAAATTTATTCAAATATTCCTGCAGCAAAACCAAATGTAAGAAGTGGAAGAATTGCT
GGTGGTGAACTTGCTTCTCTTGGTCAATTTCCTCATCTTGTGCTGCTTTACAATGTTGAT
AAATTTGGTGACACTTATATTTGTGGAAGCAGCATTATTAGTCATAATTGGTTACTTACT
GCCGGTCATTGCCTCCATGAAATTTCTTATACAACAGTTTATGCTGGAATTATTAATAGA
ATACTTGGGCCAGCAGTTTGGTCACGAGAAGTCACAGCTGCGTCGGGAAATTTCATTTTC
CATGAAGAATACAAAGGAGTACAAAATGACATCGCTTTAATTCGACTTGTTACTTCAATT
CCAAGTCATCCACATGTTGGAAATATTGCATTACCACGAAGAAGTGATGCAAGTGTTGTT
CTTGATGGAAAAATGGCAACAGTTGCAGGATTTGGAAGAATAAATGATGTTCAAATGCAA
CCATCAGAACATTTAAGATTTATGTCACAACCAATTTATCCAAATAGTAAATGTGAAACG
GTTTTTGGTAAAGTTAATGTTAGAGATACAAATTTATGCTTAAGTGGTGCAAATGGAAAA
TCAACATGTCAAGGTTAGGAGTGGACCATTGGTAACTGAAATTGCGCCTGGAAGAAATGT
TTTAGTAGGAATTGTTAGTTTTGGTGCCGAATCAGGTTGCACTTTAGGACATCCACTAGT
GTTCACACGTGTGGCTTCTTATCTTGATTGGATTGAAAAGATAACCGGCATTTATATTTA
CGATTGA

>g15485.t6 Gene=g15485 Length=245
MKLFIFLIFSISSALCLVPVKEGWKLVKSPLDSPHFHDVMEKIYSNIPAAKPNVRSGRIA
GGELASLGQFPHLVLLYNVDKFGDTYICGSSIISHNWLLTAGHCLHEISYTTVYAGIINR
ILGPAVWSREVTAASGNFIFHEEYKGVQNDIALIRLVTSIPSHPHVGNIALPRRSDASVV
LDGKMATVAGFGRINDVQMQPSEHLRFMSQPIYPNSKCETVFGKVNVRDTNLCLSGANGK
STCQG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g15485.t6 CDD cd00190 Tryp_SPc 59 245 1.15473E-35
9 g15485.t6 Gene3D G3DSA:2.40.10.10 - 53 245 1.9E-35
2 g15485.t6 PANTHER PTHR24260 - 54 245 7.4E-35
3 g15485.t6 PANTHER PTHR24260:SF90 AT07769P-RELATED 54 245 7.4E-35
6 g15485.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 89 104 3.0E-8
5 g15485.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 146 160 3.0E-8
4 g15485.t6 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 240 245 3.0E-8
1 g15485.t6 Pfam PF00089 Trypsin 59 245 9.8E-29
11 g15485.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
12 g15485.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g15485.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 11 -
14 g15485.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 12 16 -
10 g15485.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 245 -
17 g15485.t6 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 99 104 -
18 g15485.t6 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 59 245 17.327
16 g15485.t6 SMART SM00020 trypsin_2 58 245 2.4E-22
7 g15485.t6 SUPERFAMILY SSF50494 Trypsin-like serine proteases 51 245 6.63E-43
8 g15485.t6 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -

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