Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alaserpin.

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.t52 TTS g2453.t52 18033403 18033403
chr_3 g2453 g2453.t52 isoform g2453.t52 18034087 18039926
chr_3 g2453 g2453.t52 exon g2453.t52.exon1 18034087 18034215
chr_3 g2453 g2453.t52 exon g2453.t52.exon2 18034278 18034426
chr_3 g2453 g2453.t52 exon g2453.t52.exon3 18034481 18034677
chr_3 g2453 g2453.t52 cds g2453.t52.CDS1 18034550 18034677
chr_3 g2453 g2453.t52 exon g2453.t52.exon4 18038878 18039019
chr_3 g2453 g2453.t52 cds g2453.t52.CDS2 18038878 18039019
chr_3 g2453 g2453.t52 exon g2453.t52.exon5 18039101 18039684
chr_3 g2453 g2453.t52 cds g2453.t52.CDS3 18039101 18039684
chr_3 g2453 g2453.t52 exon g2453.t52.exon6 18039768 18039926
chr_3 g2453 g2453.t52 cds g2453.t52.CDS4 18039768 18039903
chr_3 g2453 g2453.t52 TSS g2453.t52 18040147 18040147

Sequences

>g2453.t52 Gene=g2453 Length=1360
TTCAAACAGCCGTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGT
TAAAAGGTCTCGAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGAT
TTGGCGAGAGCGTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGA
AAGGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAG
CTGAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTG
AAAATCAAACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACA
CACGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATC
CAAAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATT
TCATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCAT
TGGAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCA
CTGGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAA
AGATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTG
AATTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAAT
TTGATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCT
TCATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCAATCAGAGTTACAA
ATAGAATAGCAAGACGATTTAAAAGCTTTAAGTGCGATCATTCATTTTTGTTTATGCTCA
AGAATACTAATGCGCTTTTGTTCATGGGAAGAATTCAAGAAATTCAATTATGAAAATTAA
ATCAACAATTAACGAAATAAAATGCTCGAGATTTTAAACTTTTTTAAAAATTTTGTTATT
AACTATCATGGTCATAAATTATAGCTTAAGACTATTTAGAAAATTCAAATGCAATCGTCC
ATTTTTATTCATCTTAAGAAATTCAAAAGCGGCAATTTTCATGGGAAGAATTAACAATAT
CTAAAGAATTCTGGTGTGGAAAATTCTTAAAAACTCATTGGGACGGCTTTAAGTATAAGA
CCACTTCCACGACAATTCAAATGCAGACAACCATTTTTGTTTACAATTAAAAAAGAAAAA
TCTGCAATCTTTTTCGGAAGAATTAAAAAATTTTAAAATT

>g2453.t52 Gene=g2453 Length=329
MFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTNGLKIANKIYVMKGYSVKPT
FQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDADTRMVLVNA
IYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDATALELPYKDS
DITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFDIELTEPLKK
MGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATAIRVTNRIARRFK
SFKCDHSFLFMLKNTNALLFMGRIQEIQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2453.t52 CDD cd19601 serpin42Da-like 2 323 3.74677E-139
8 g2453.t52 Gene3D G3DSA:3.30.497.10 Antithrombin 2 273 4.5E-113
7 g2453.t52 Gene3D G3DSA:2.30.39.10 - 123 322 4.5E-113
2 g2453.t52 PANTHER PTHR11461 SERINE PROTEASE INHIBITOR, SERPIN 38 325 2.7E-81
3 g2453.t52 PANTHER PTHR11461:SF180 LEUKOCYTE ELASTASE INHIBITOR 38 325 2.7E-81
1 g2453.t52 Pfam PF00079 Serpin (serine protease inhibitor) 3 324 2.8E-100
6 g2453.t52 ProSitePatterns PS00284 Serpins signature. 302 312 -
5 g2453.t52 SMART SM00093 serpin2 2 327 3.6E-103
4 g2453.t52 SUPERFAMILY SSF56574 Serpins 2 324 9.82E-107

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

Pathway

  • This transcript belongs to the following pathways

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