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.t6 isoform g2453.t6 18032427 18039670
chr_3 g2453 g2453.t6 exon g2453.t6.exon1 18032427 18032707
chr_3 g2453 g2453.t6 cds g2453.t6.CDS1 18032580 18032707
chr_3 g2453 g2453.t6 exon g2453.t6.exon2 18038878 18039019
chr_3 g2453 g2453.t6 cds g2453.t6.CDS2 18038878 18039019
chr_3 g2453 g2453.t6 exon g2453.t6.exon3 18039101 18039670
chr_3 g2453 g2453.t6 cds g2453.t6.CDS3 18039101 18039667
chr_3 g2453 g2453.t6 TSS g2453.t6 18040147 18040147
chr_3 g2453 g2453.t6 TTS g2453.t6 NA NA

Sequences

>g2453.t6 Gene=g2453 Length=993
GTGATGAAAGGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAAT
TCAGAAGCTGAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACA
TGGGTTGAAAATCAAACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGAT
GCTGACACACGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAA
TTTGATCCAAAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGAT
GTTGATTTCATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCA
ACTGCATTGGAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAAT
AAACGCACTGGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTC
ACAACAAAGATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTT
GACATTGAATTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCT
GCTCAATTTGATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCAT
AAAGCCTTCATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGAGGTTGAG
TTTCTAGGACGCAGTGCGAGACTATTTGATGAATTCAAATTTAGAGCTAATCGTCCATTT
ATTTTTACATTAAAACAAGGAACACAAGCTTTATTCTTAGGAAGATACAACAGTGTTTAA
TATTTAGCTAGATGAAAATTTTAGCATTTTTTTGTCAAAAATATCTTTTCAAAGAAATAA
AATCATTGTTATTAACATACCATAAATCTTTTCTATCTGTTTTTCTAATGTTATTATATA
AAACTTTTAGCTTTGCTTACAAAACTTTTAACA

>g2453.t6 Gene=g2453 Length=278
MKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDA
DTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDAT
ALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFD
IELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATEVEF
LGRSARLFDEFKFRANRPFIFTLKQGTQALFLGRYNSV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2453.t6 CDD cd19601 serpin42Da-like 1 274 8.87215E-121
8 g2453.t6 Gene3D G3DSA:3.30.497.10 Antithrombin 2 222 6.0E-101
7 g2453.t6 Gene3D G3DSA:2.30.39.10 - 72 273 6.0E-101
2 g2453.t6 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 4 277 1.3E-74
3 g2453.t6 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 4 277 1.3E-74
1 g2453.t6 Pfam PF00079 Serpin (serine protease inhibitor) 2 276 2.9E-90
6 g2453.t6 ProSitePatterns PS00284 Serpins signature. 253 263 -
5 g2453.t6 SMART SM00093 serpin2 1 278 8.2E-70
4 g2453.t6 SUPERFAMILY SSF56574 Serpins 2 276 3.67E-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