Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Serine protease inhibitor 42Dd.

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 g2453 g2453.t48 TTS g2453.t48 18033403 18033403
chr_3 g2453 g2453.t48 isoform g2453.t48 18034087 18039438
chr_3 g2453 g2453.t48 exon g2453.t48.exon1 18034087 18034426
chr_3 g2453 g2453.t48 exon g2453.t48.exon2 18034481 18034677
chr_3 g2453 g2453.t48 cds g2453.t48.CDS1 18034550 18034677
chr_3 g2453 g2453.t48 exon g2453.t48.exon3 18038878 18039019
chr_3 g2453 g2453.t48 cds g2453.t48.CDS2 18038878 18039019
chr_3 g2453 g2453.t48 exon g2453.t48.exon4 18039101 18039438
chr_3 g2453 g2453.t48 cds g2453.t48.CDS3 18039101 18039361
chr_3 g2453 g2453.t48 TSS g2453.t48 18040147 18040147

Sequences

>g2453.t48 Gene=g2453 Length=1017
CCTATCAATTTGATCCAAAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATA
AAGTTGATGTTGATTTCATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATC
TTGATGCAACTGCATTGGAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTT
TACCAAATAAACGCACTGGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCA
ATGAGCTCACAACAAAGATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAA
TTGAATTTGACATTGAATTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCT
CAGATGCTGCTCAATTTGATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAG
TTGTTCATAAAGCCTTCATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAG
CAATCAGAGTTACAAATAGAATAGCAAGACGATTTAAAAGCTTTAAGTGCGATCATTCAT
TTTTGTTTATGCTCAAGAATACTAATGCGCTTTTGTTCATGGGAAGAATTCAAGAAATTC
AATTATGAAAATTAAATCAACAATTAACGAAATAAAATGCTCGAGATTTTAAACTTTTTT
AAAAATTTTGTTATTAACTATCATGGTCATAAATTATAGCTTAAGACTATTTAGAAAATT
CAAATGCAATCGTCCATTTTTATTCATCTTAAGAAATTCAAAAGCGGCAATTTTCATGGG
AAGAATTAACAATATCTAAAGAATTCTGGTGTGGAAAATTCTTAAAGCATGACAAAATAG
AAATTTTATTAGGAATTTTTGATAAAAAAAGTTTTCCCTTTCTTTTAGAACTCATTGGGA
CGGCTTTAAGTATAAGACCACTTCCACGACAATTCAAATGCAGACAACCATTTTTGTTTA
CAATTAAAAAAGAAAAATCTGCAATCTTTTTCGGAAGAATTAAAAAATTTTAAAATT

>g2453.t48 Gene=g2453 Length=176
MKIKKHFKYGRFDDLDATALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTK
MYSEEVNVELPKFKIEFDIELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAF
IEVNEEGAEAAAATAIRVTNRIARRFKSFKCDHSFLFMLKNTNALLFMGRIQEIQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2453.t48 Gene3D G3DSA:2.30.39.10 - 1 169 9.3E-60
8 g2453.t48 Gene3D G3DSA:3.30.497.10 Antithrombin 76 120 9.3E-60
2 g2453.t48 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 1 172 1.8E-42
3 g2453.t48 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 1 172 1.8E-42
1 g2453.t48 Pfam PF00079 Serpin (serine protease inhibitor) 1 171 1.6E-49
6 g2453.t48 ProSitePatterns PS00284 Serpins signature. 149 159 -
5 g2453.t48 SMART SM00093 serpin2 1 174 2.7E-6
4 g2453.t48 SUPERFAMILY SSF56574 Serpins 1 172 1.83E-57

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:0005615 extracellular space CC
GO:0004867 serine-type endopeptidase inhibitor activity MF

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.

Raw TPM values