Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_3 g3913 g3913.t2 TSS g3913.t2 28849717 28849717
chr_3 g3913 g3913.t2 isoform g3913.t2 28849749 28850406
chr_3 g3913 g3913.t2 exon g3913.t2.exon1 28849749 28849952
chr_3 g3913 g3913.t2 cds g3913.t2.CDS1 28849749 28849952
chr_3 g3913 g3913.t2 exon g3913.t2.exon2 28850010 28850091
chr_3 g3913 g3913.t2 cds g3913.t2.CDS2 28850010 28850091
chr_3 g3913 g3913.t2 exon g3913.t2.exon3 28850152 28850406
chr_3 g3913 g3913.t2 cds g3913.t2.CDS3 28850152 28850405
chr_3 g3913 g3913.t2 TTS g3913.t2 28850940 28850940

Sequences

>g3913.t2 Gene=g3913 Length=541
ATGAAATTTGTGGCTTTATTCTTGACAATTTTTGTTGCTTTTGCGACTGCAGAAATTGAC
AATCAAGTTGATTGGTCAAATGTCTCACCAATTTTTCAACTAATTAAGCAACGTTTAGAT
GAACGCAAAAATGAACCTCTTCAACCACCAAATCGAAGAATTGTCAATGGGCAAGAAGCA
GAACCACATCAATTCCCCTACCAAATCGCTTTACTTATTCAATCACCAACTGGCACTGGT
TTGTGCGGTGGATCAGTCATTTCAGCGACAGCTGCATTGACAGCTGCTCATTGTACATCA
ACCGGTGTAACTGGTTATCTTTTGATTGCTGGTGCAGTAAATCGCGTGCAAATCGAGCCA
CAACAACAGAGACGTCAGGTACCATCTAGTGCTTTCGTTCCACATCCTCAATATGGCCCA
CTTCGTTTAGTTAATGATATTGCTGTCATTCGTGTTGCAGAAGCATTTACTTTGAATAAT
GTAGTTCAAGCTATTGCTTTAGCATCAAATCCAAATGAACTTCATGTTGACGCTGTAGTG
A

>g3913.t2 Gene=g3913 Length=180
MKFVALFLTIFVAFATAEIDNQVDWSNVSPIFQLIKQRLDERKNEPLQPPNRRIVNGQEA
EPHQFPYQIALLIQSPTGTGLCGGSVISATAALTAAHCTSTGVTGYLLIAGAVNRVQIEP
QQQRRQVPSSAFVPHPQYGPLRLVNDIAVIRVAEAFTLNNVVQAIALASNPNELHVDAVV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3913.t2 Gene3D G3DSA:2.40.10.10 - 48 180 2.4E-27
2 g3913.t2 PANTHER PTHR24250:SF56 SERINE PROTEASE P96 24 179 4.7E-38
3 g3913.t2 PANTHER PTHR24250 CHYMOTRYPSIN-RELATED 24 179 4.7E-38
1 g3913.t2 Pfam PF00089 Trypsin 54 177 1.4E-23
8 g3913.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
9 g3913.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
10 g3913.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 13 -
11 g3913.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 17 -
7 g3913.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 180 -
13 g3913.t2 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 93 98 -
15 g3913.t2 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 54 180 12.218
14 g3913.t2 SMART SM00020 trypsin_2 53 180 1.0E-4
4 g3913.t2 SUPERFAMILY SSF50494 Trypsin-like serine proteases 39 173 8.49E-32
5 g3913.t2 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -
12 g3913.t2 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