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.t155 TTS g2453.t155 18037897 18037897
chr_3 g2453 g2453.t155 isoform g2453.t155 18038498 18039975
chr_3 g2453 g2453.t155 exon g2453.t155.exon1 18038498 18038739
chr_3 g2453 g2453.t155 cds g2453.t155.CDS1 18038579 18038739
chr_3 g2453 g2453.t155 exon g2453.t155.exon2 18038878 18039019
chr_3 g2453 g2453.t155 cds g2453.t155.CDS2 18038878 18039019
chr_3 g2453 g2453.t155 exon g2453.t155.exon3 18039101 18039684
chr_3 g2453 g2453.t155 cds g2453.t155.CDS3 18039101 18039667
chr_3 g2453 g2453.t155 exon g2453.t155.exon4 18039830 18039975
chr_3 g2453 g2453.t155 TSS g2453.t155 18040147 18040147

Sequences

>g2453.t155 Gene=g2453 Length=1114
AACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTTCAAACAGCC
GTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTAAAAGGTCTC
GAATATCAGGGTTTCACTGATCAAATCTAATAAGATTTATGTGATGAAAGGCTATTCAGT
CAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGATGTAAA
TTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAAACAAA
TAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATGGTTCT
TGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCAACATT
CAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAAATTAA
GAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTGCCTTA
CAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTGGCTGA
ATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTATTCGGA
AGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACCGAGCC
ATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAATTGCT
TACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAAGTCAA
TGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGGTATCAGAATTCAAAAACGCAGCCTCTC
TTTTCACCATCTATTCATTGCCGACCATCCATTCTTATTTGCATTGCGCTGTGTTAAATC
GAATTTTATTTATTTTGCTGGCCGCTTAAGTCATCTCGATGAAGATTTGACACAACAGCA
CGACGAATTATAAAGAAATCTCAATTTGAATGTGCATTACCGAATTCGGATAAATGTCAA
TAAAAACAAGTATTGTCTACGGATTAATTGTTAG

>g2453.t155 Gene=g2453 Length=289
MKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDA
DTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDAT
ALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFD
IELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATGIRI
QKRSLSFHHLFIADHPFLFALRCVKSNFIYFAGRLSHLDEDLTQQHDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2453.t155 CDD cd19601 serpin42Da-like 1 274 2.52941E-126
8 g2453.t155 Gene3D G3DSA:3.30.497.10 Antithrombin 2 222 6.4E-102
7 g2453.t155 Gene3D G3DSA:2.30.39.10 - 72 273 6.4E-102
2 g2453.t155 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 4 276 3.5E-77
3 g2453.t155 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 4 276 3.5E-77
1 g2453.t155 Pfam PF00079 Serpin (serine protease inhibitor) 2 276 3.2E-93
6 g2453.t155 ProSitePatterns PS00284 Serpins signature. 251 261 -
5 g2453.t155 SMART SM00093 serpin2 1 278 2.9E-73
4 g2453.t155 SUPERFAMILY SSF56574 Serpins 2 275 1.44E-99

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