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.t70 isoform g2453.t70 18034481 18040157
chr_3 g2453 g2453.t70 exon g2453.t70.exon1 18034481 18034677
chr_3 g2453 g2453.t70 TTS g2453.t70 18034498 18034498
chr_3 g2453 g2453.t70 cds g2453.t70.CDS1 18034550 18034677
chr_3 g2453 g2453.t70 exon g2453.t70.exon2 18038878 18039019
chr_3 g2453 g2453.t70 cds g2453.t70.CDS2 18038878 18039019
chr_3 g2453 g2453.t70 exon g2453.t70.exon3 18039101 18039786
chr_3 g2453 g2453.t70 cds g2453.t70.CDS3 18039101 18039667
chr_3 g2453 g2453.t70 exon g2453.t70.exon4 18040049 18040157
chr_3 g2453 g2453.t70 TSS g2453.t70 18040147 18040147

Sequences

>g2453.t70 Gene=g2453 Length=1134
TAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATCAATGGCGTCACCCTCTG
AAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAATTACTAATGGATT
GAAAATCGGTAAGAAAACCTTCAGAAATAAAAAATTTTGCCTAAAAATAATCGATATCTT
TTCTTTTCTATACACACCTACGCACATGCAGCTAATAAGATTTATGTGATGAAAGGCTAT
TCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGAT
GTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAA
ACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATG
GTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCA
ACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAA
ATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTG
CCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTG
GCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTAT
TCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACC
GAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAA
TTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAA
GTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCAATCAGAGTTACAAATAGAATA
GCAAGACGATTTAAAAGCTTTAAGTGCGATCATTCATTTTTGTTTATGCTCAAGAATACT
AATGCGCTTTTGTTCATGGGAAGAATTCAAGAAATTCAATTATGAAAATTAAATCAACAA
TTAACGAAATAAAATGCTCGAGATTTTAAACTTTTTTAAAAATTTTGTTATTAA

>g2453.t70 Gene=g2453 Length=278
MKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDA
DTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDAT
ALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFD
IELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATAIRV
TNRIARRFKSFKCDHSFLFMLKNTNALLFMGRIQEIQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2453.t70 CDD cd19601 serpin42Da-like 1 272 8.20703E-123
8 g2453.t70 Gene3D G3DSA:3.30.497.10 Antithrombin 2 222 5.6E-102
7 g2453.t70 Gene3D G3DSA:2.30.39.10 - 72 271 5.6E-102
2 g2453.t70 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 4 274 2.6E-76
3 g2453.t70 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 4 274 2.6E-76
1 g2453.t70 Pfam PF00079 Serpin (serine protease inhibitor) 2 273 9.4E-91
6 g2453.t70 ProSitePatterns PS00284 Serpins signature. 251 261 -
5 g2453.t70 SMART SM00093 serpin2 1 276 4.6E-73
4 g2453.t70 SUPERFAMILY SSF56574 Serpins 2 274 5.5E-98

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