Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Trypsin-1.

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.t3 isoform g16591.t3 10137971 10139589
chr_4 g16591 g16591.t3 exon g16591.t3.exon1 10137971 10138218
chr_4 g16591 g16591.t3 TTS g16591.t3 10137978 10137978
chr_4 g16591 g16591.t3 exon g16591.t3.exon2 10138337 10138374
chr_4 g16591 g16591.t3 cds g16591.t3.CDS1 10138364 10138374
chr_4 g16591 g16591.t3 exon g16591.t3.exon3 10138770 10138948
chr_4 g16591 g16591.t3 cds g16591.t3.CDS2 10138770 10138948
chr_4 g16591 g16591.t3 exon g16591.t3.exon4 10139068 10139195
chr_4 g16591 g16591.t3 cds g16591.t3.CDS3 10139068 10139195
chr_4 g16591 g16591.t3 exon g16591.t3.exon5 10139248 10139369
chr_4 g16591 g16591.t3 cds g16591.t3.CDS4 10139248 10139369
chr_4 g16591 g16591.t3 exon g16591.t3.exon6 10139434 10139589
chr_4 g16591 g16591.t3 cds g16591.t3.CDS5 10139434 10139491
chr_4 g16591 g16591.t3 TSS g16591.t3 10139750 10139750

Sequences

>g16591.t3 Gene=g16591 Length=871
TTTTAAACGCAAATGTTTTACGAAAGGGAAAAATTGTAGGCGGTTACTCAGCTGATTATT
ATCAATTTCCTTATCAAGCGTCATTGCGTACTGCTTTAATGAGTACGCACTTTTGCGGGG
CTTTTTTATTAACTGAACGTTGGCTCATGAGTGCAGGTCACTGCACTGATAAAAGAAAAC
CATCCGGTGTTGTCGTCGTTGTTGGTGCATTTACTAGAGCAAAAGATGAAGGTGTCAAAC
ATAATGTGCTACTTTTAGTCACACATCCTGAATTTGATGCAAAATCACTTCAAAATGACA
TTTCAATGATCAAAACTGAAACTTTTATTGATTTTACAATCAGCATTCGACCAGTTCGAT
TGCAAGCAATGCCAGCTGAAGAAGGAATAGAAGCTTTTGTATCTGGTTGGGGTTACATAA
ATTCAAAAGGAACAAATCCTGATGTTTTACAATGGATAAAAGTAAAAACAATTAATATTG
ATGAATGTCGTGAAAAAATGAGTAAACAAAATGCTGAAAGAATTTTTGAAACAAATATTT
GTGCTGATGCCATGGAAAGTACTGGATCTAATGGAAATGGTGGAGGTGACAGTTGATGGA
GCTTTAATAGGAATTGTTTCATGGGGAGTGCCATGCGGTAAAGGTTTACCTGATGTTTAC
ACTCAAGTTTCACCATTCAAAGATTGGATTGATGAAACAATTGATTTTCCTGAAATTGAA
GAAGATGATGGCGATTATGAATATAATTTGATTGACATAATTCAAGATGATGCACATGAT
ATGGAATTTATGGCAACTTAAATTTTGTGAACTTGATTTGATAAATAAAATTTTTTGATT
ATTTTCAATTGTTTCGAAAGAATTTAATTCA

>g16591.t3 Gene=g16591 Length=165
MSTHFCGAFLLTERWLMSAGHCTDKRKPSGVVVVVGAFTRAKDEGVKHNVLLLVTHPEFD
AKSLQNDISMIKTETFIDFTISIRPVRLQAMPAEEGIEAFVSGWGYINSKGTNPDVLQWI
KVKTINIDECREKMSKQNAERIFETNICADAMESTGSNGNGGGDS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16591.t3 CDD cd00190 Tryp_SPc 2 153 2.67663E-41
7 g16591.t3 Gene3D G3DSA:2.40.10.10 - 3 85 7.7E-34
6 g16591.t3 Gene3D G3DSA:2.40.10.10 - 86 162 7.7E-34
2 g16591.t3 PANTHER PTHR24276 POLYSERASE-RELATED 2 163 3.2E-26
3 g16591.t3 PANTHER PTHR24276:SF89 IP07603P 2 163 3.2E-26
1 g16591.t3 Pfam PF00089 Trypsin 3 163 1.1E-28
9 g16591.t3 ProSitePatterns PS00134 Serine proteases, trypsin family, histidine active site. 17 22 -
11 g16591.t3 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 165 16.65
10 g16591.t3 SMART SM00020 trypsin_2 2 161 4.1E-7
4 g16591.t3 SUPERFAMILY SSF50494 Trypsin-like serine proteases 3 156 1.56E-33
5 g16591.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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