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.t118 TTS g2453.t118 18036404 18036404
chr_3 g2453 g2453.t118 isoform g2453.t118 18036421 18040145
chr_3 g2453 g2453.t118 exon g2453.t118.exon1 18036421 18036585
chr_3 g2453 g2453.t118 cds g2453.t118.CDS1 18036455 18036585
chr_3 g2453 g2453.t118 exon g2453.t118.exon2 18038878 18039019
chr_3 g2453 g2453.t118 cds g2453.t118.CDS2 18038878 18039019
chr_3 g2453 g2453.t118 exon g2453.t118.exon3 18039101 18039684
chr_3 g2453 g2453.t118 cds g2453.t118.CDS3 18039101 18039667
chr_3 g2453 g2453.t118 exon g2453.t118.exon4 18039869 18039975
chr_3 g2453 g2453.t118 exon g2453.t118.exon5 18040042 18040145
chr_3 g2453 g2453.t118 TSS g2453.t118 18040147 18040147

Sequences

>g2453.t118 Gene=g2453 Length=1102
TTTGTGCTCTGACTATCGTGCTAAACGCATCAATGGCGTCACCCTCTGAAATCGAACAAA
AGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAATTGTACCAAAACTCAATTCAAGGAA
AAACTGGCAATGTAATTATTTCACCTGTCTCAGTTCAAACAGCCGTCACTTTGGCTATGT
TTGGTGCTGCTGGTGAGACCAAGCAAGAAATCTAATAAGATTTATGTGATGAAAGGCTAT
TCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGAT
GTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAA
ACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATG
GTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCA
ACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAA
ATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTG
CCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTG
GCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTAT
TCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACC
GAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAA
TTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAA
GTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCAATGATTATGATGTCAAGATGT
GCAATGATTTCTCGTTCTCAACAATTTATTGCGAACCGTCCATTTATTTTTGCATTGAAA
TTTGTTGCAGATGCTTTGTTTGTTGGAAGAATCGAAAATTTTAATTGAAATAAAGTATTA
CATGCTTGAATTCAATAAAAAT

>g2453.t118 Gene=g2453 Length=279
MKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDA
DTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDAT
ALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFD
IELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATAMIM
MSRCAMISRSQQFIANRPFIFALKFVADALFVGRIENFN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2453.t118 CDD cd19601 serpin42Da-like 1 274 3.55632E-124
8 g2453.t118 Gene3D G3DSA:3.30.497.10 Antithrombin 2 227 1.4E-95
7 g2453.t118 Gene3D G3DSA:2.30.39.10 - 76 277 1.4E-95
2 g2453.t118 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 4 275 3.6E-75
3 g2453.t118 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 4 275 3.6E-75
1 g2453.t118 Pfam PF00079 Serpin (serine protease inhibitor) 2 277 2.8E-90
6 g2453.t118 ProSitePatterns PS00284 Serpins signature. 253 263 -
5 g2453.t118 SMART SM00093 serpin2 1 278 1.7E-69
4 g2453.t118 SUPERFAMILY SSF56574 Serpins 2 277 6.28E-97

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