Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Chymotrypsin BII.

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_2 g7898 g7898.t32 isoform g7898.t32 26811677 26812392
chr_2 g7898 g7898.t32 exon g7898.t32.exon1 26811677 26811687
chr_2 g7898 g7898.t32 cds g7898.t32.CDS1 26811677 26811687
chr_2 g7898 g7898.t32 exon g7898.t32.exon2 26811740 26811934
chr_2 g7898 g7898.t32 cds g7898.t32.CDS2 26811740 26811934
chr_2 g7898 g7898.t32 exon g7898.t32.exon3 26812042 26812145
chr_2 g7898 g7898.t32 cds g7898.t32.CDS3 26812042 26812145
chr_2 g7898 g7898.t32 exon g7898.t32.exon4 26812202 26812392
chr_2 g7898 g7898.t32 cds g7898.t32.CDS4 26812202 26812392
chr_2 g7898 g7898.t32 TSS g7898.t32 26812424 26812424
chr_2 g7898 g7898.t32 TTS g7898.t32 NA NA

Sequences

>g7898.t32 Gene=g7898 Length=501
ATGAAAGTGTTTGTGTTATTTTTCTTGGCCTGTGCCACATCAGTTTATGCTGATCATTTT
ATTGAATTTGATTGGAGTAATGTAAAACCAGTGAGAGAAATTCCAGGTTTCTGGGAAAAA
AGACATGTATCATTAAGACCAAGAGCTAGCAATACACCAAGAAGACGAATTGTCAATGGC
GAAATTGCGACACCACATCAATTTCCTTATCAAGCTGGTCTTCTCTTCCAATTTACTGGT
GGCACTGCTTTATGTGGTGGTGCATTGATTTCAGCACGCACTGTTCTTACTGCTGCTCAT
TGCGTTGATGTCAGCTCTGGTGGTACAGTTGTTTTGGGTGCACAATTCATCAACCAAGTT
GAAGCAACACAACAAAGAATTCCAGTTACAACAGCCGGTATTGTTTTACATCCACAATGG
GACCCAAGTTTGATTCGCAATGATGTAGCAGTTCTTCATCTTTCAACACCTGCTACACTT
TCTAACATTGTTTCATTAATT

>g7898.t32 Gene=g7898 Length=167
MKVFVLFFLACATSVYADHFIEFDWSNVKPVREIPGFWEKRHVSLRPRASNTPRRRIVNG
EIATPHQFPYQAGLLFQFTGGTALCGGALISARTVLTAAHCVDVSSGGTVVLGAQFINQV
EATQQRIPVTTAGIVLHPQWDPSLIRNDVAVLHLSTPATLSNIVSLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7898.t32 Gene3D G3DSA:2.40.10.10 - 57 102 3.0E-16
8 g7898.t32 Gene3D G3DSA:2.40.10.10 - 108 167 1.9E-10
2 g7898.t32 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 4 164 6.3E-39
3 g7898.t32 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 4 164 6.3E-39
4 g7898.t32 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 86 101 9.0E-7
5 g7898.t32 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 144 158 9.0E-7
1 g7898.t32 Pfam PF00089 Trypsin 57 165 8.6E-25
11 g7898.t32 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
12 g7898.t32 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
13 g7898.t32 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 12 -
14 g7898.t32 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
10 g7898.t32 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 167 -
16 g7898.t32 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 96 101 -
18 g7898.t32 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 57 167 13.154
17 g7898.t32 SMART SM00020 trypsin_2 56 167 0.0012
6 g7898.t32 SUPERFAMILY SSF50494 Trypsin-like serine proteases 46 166 3.09E-34
7 g7898.t32 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -
15 g7898.t32 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 17 -

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