Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin-4.

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 g16591 g16591.t9 isoform g16591.t9 10137971 10139720
chr_4 g16591 g16591.t9 exon g16591.t9.exon1 10137971 10138218
chr_4 g16591 g16591.t9 TTS g16591.t9 10137978 10137978
chr_4 g16591 g16591.t9 exon g16591.t9.exon2 10138402 10138455
chr_4 g16591 g16591.t9 cds g16591.t9.CDS1 10138403 10138455
chr_4 g16591 g16591.t9 exon g16591.t9.exon3 10138770 10138948
chr_4 g16591 g16591.t9 cds g16591.t9.CDS2 10138770 10138948
chr_4 g16591 g16591.t9 exon g16591.t9.exon4 10139068 10139195
chr_4 g16591 g16591.t9 cds g16591.t9.CDS3 10139068 10139195
chr_4 g16591 g16591.t9 exon g16591.t9.exon5 10139248 10139369
chr_4 g16591 g16591.t9 cds g16591.t9.CDS4 10139248 10139369
chr_4 g16591 g16591.t9 exon g16591.t9.exon6 10139434 10139589
chr_4 g16591 g16591.t9 cds g16591.t9.CDS5 10139434 10139589
chr_4 g16591 g16591.t9 exon g16591.t9.exon7 10139672 10139720
chr_4 g16591 g16591.t9 cds g16591.t9.CDS6 10139672 10139720
chr_4 g16591 g16591.t9 TSS g16591.t9 10139750 10139750

Sequences

>g16591.t9 Gene=g16591 Length=936
ATGTTGATTTTCAATTTCTTAATTCTTCTTTTTTTCTTCAATTTTGAAATTTTAAACGCA
AATGTTTTACGAAAGGGAAAAATTGTAGGCGGTTACTCAGCTGATTATTATCAATTTCCT
TATCAAGCGTCATTGCGTACTGCTTTAATGAGTACGCACTTTTGCGGGGCTTTTTTATTA
ACTGAACGTTGGCTCATGAGTGCAGGTCACTGCACTGATAAAAGAAAACCATCCGGTGTT
GTCGTCGTTGTTGGTGCATTTACTAGAGCAAAAGATGAAGGTGTCAAACATAATGTGCTA
CTTTTAGTCACACATCCTGAATTTGATGCAAAATCACTTCAAAATGACATTTCAATGATC
AAAACTGAAACTTTTATTGATTTTACAATCAGCATTCGACCAGTTCGATTGCAAGCAATG
CCAGCTGAAGAAGGAATAGAAGCTTTTGTATCTGGTTGGGGTTACATAAATTCAAAAGGA
ACAAATCCTGATGTTTTACAATGGATAAAAGTAAAAACAATTAATATTGATGAATGTCGT
GAAAAAATGAGTAAACAAAATGCTGAAAGAATTTTTGAAACAAATATTTGTGCTGATGCC
ATGGAAAGTACTGGATCTAATGGAAATGGTGGAGGGGTGACAGTGGAGGGCCTTTGGTAT
TATTTTATAAAATTATTTATTATTTAAAGGGAGTGCCATGCGGTAAAGGTTTACCTGATG
TTTACACTCAAGTTTCACCATTCAAAGATTGGATTGATGAAACAATTGATTTTCCTGAAA
TTGAAGAAGATGATGGCGATTATGAATATAATTTGATTGACATAATTCAAGATGATGCAC
ATGATATGGAATTTATGGCAACTTAAATTTTGTGAACTTGATTTGATAAATAAAATTTTT
TGATTATTTTCAATTGTTTCGAAAGAATTTAATTCA

>g16591.t9 Gene=g16591 Length=228
MLIFNFLILLFFFNFEILNANVLRKGKIVGGYSADYYQFPYQASLRTALMSTHFCGAFLL
TERWLMSAGHCTDKRKPSGVVVVVGAFTRAKDEGVKHNVLLLVTHPEFDAKSLQNDISMI
KTETFIDFTISIRPVRLQAMPAEEGIEAFVSGWGYINSKGTNPDVLQWIKVKTINIDECR
EKMSKQNAERIFETNICADAMESTGSNGNGGGVTVEGLWYYFIKLFII

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g16591.t9 CDD cd00190 Tryp_SPc 28 202 1.06618E-50
9 g16591.t9 Gene3D G3DSA:2.40.10.10 - 29 212 5.0E-39
10 g16591.t9 Gene3D G3DSA:2.40.10.10 - 40 134 5.0E-39
2 g16591.t9 PANTHER PTHR24276 POLYSERASE-RELATED 21 215 1.6E-34
3 g16591.t9 PANTHER PTHR24276:SF89 IP07603P 21 215 1.6E-34
6 g16591.t9 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 56 71 4.9E-5
5 g16591.t9 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 112 126 4.9E-5
4 g16591.t9 PRINTS PR00722 Chymotrypsin serine protease family (S1) signature 203 215 4.9E-5
1 g16591.t9 Pfam PF00089 Trypsin 28 212 1.6E-33
12 g16591.t9 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
13 g16591.t9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
14 g16591.t9 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 13 -
15 g16591.t9 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 20 -
11 g16591.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 228 -
18 g16591.t9 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 66 71 -
19 g16591.t9 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 28 228 19.744
17 g16591.t9 SMART SM00020 trypsin_2 27 226 4.5E-24
7 g16591.t9 SUPERFAMILY SSF50494 Trypsin-like serine proteases 21 212 7.54E-43
8 g16591.t9 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -

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