General information for g2453.t113
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine protease inhibitor 42Dd.
Parent gene
- The parent gene g2453 is located on chr_3: 18040351..18047135 (- strand)
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.t113 | TTS | g2453.t113 | 18036404 | 18036404 |
| chr_3 | g2453 | g2453.t113 | isoform | g2453.t113 | 18036409 | 18040643 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon1 | 18036409 | 18036585 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS1 | 18036455 | 18036585 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t113 | exon | g2453.t113.exon6 | 18040582 | 18040643 |
| chr_3 | g2453 | g2453.t113 | cds | g2453.t113.CDS6 | 18040582 | 18040630 |
| chr_3 | g2453 | g2453.t113 | TSS | g2453.t113 | 18040724 | 18040724 |
Sequences
>g2453.t113 Gene=g2453 Length=1289
AGTAAACATTTTCATGCATAAAGTTCTTTCAATTCTACAATTCAGTAATCAATTTGAAAC
AGTAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATCAATGGCGTCACCCTC
TGAAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAATTGTACCAAAA
CTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTTCAAACAGCCGT
CACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTAAAAGGTCTCGA
ATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGATTTGGCGAGAGCGT
CGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGAAAGGCTATTCAGT
CAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGATGTAAA
TTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAAACAAA
TAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATGGTTCT
TGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCAACATT
CAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAAATTAA
GAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTGCCTTA
CAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTGGCTGA
ATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTATTCGGA
AGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACCGAGCC
ATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAATTGCT
TACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAAGTCAA
TGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCAATGATTATGATGTCAAGATGTGCAAT
GATTTCTCGTTCTCAACAATTTATTGCGAACCGTCCATTTATTTTTGCATTGAAATTTGT
TGCAGATGCTTTGTTTGTTGGAAGAATCGAAAATTTTAATTGAAATAAAGTATTACATGC
TTGAATTCAATAAAAATTGTAATGAAAAT
>g2453.t113 Gene=g2453 Length=409
MHKVLSILQFSNQFETVILSVCALTIVLNASMASPSEIEQKFSKSASNFAAKLYQNSIQG
KTGNVIISPVSVQTAVTLAMFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTN
GLKIANKIYVMKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIK
NLISPDSLDADTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFK
YGRFDDLDATALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNV
ELPKFKIEFDIELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGA
EAAAATAMIMMSRCAMISRSQQFIANRPFIFALKFVADALFVGRIENFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2453.t113 | CDD | cd19601 | serpin42Da-like | 45 | 404 | 3.26538E-154 |
| 6 | g2453.t113 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 61 | 352 | 1.8E-120 |
| 5 | g2453.t113 | Gene3D | G3DSA:2.30.39.10 | - | 202 | 403 | 1.8E-120 |
| 2 | g2453.t113 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 42 | 405 | 7.6E-90 |
| 3 | g2453.t113 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 42 | 405 | 7.6E-90 |
| 1 | g2453.t113 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 45 | 407 | 5.2E-111 |
| 8 | g2453.t113 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 33 | - |
| 9 | g2453.t113 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 16 | - |
| 10 | g2453.t113 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 17 | 28 | - |
| 11 | g2453.t113 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 29 | 33 | - |
| 7 | g2453.t113 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 409 | - |
| 13 | g2453.t113 | ProSitePatterns | PS00284 | Serpins signature. | 383 | 393 | - |
| 14 | g2453.t113 | SMART | SM00093 | serpin2 | 51 | 408 | 2.7E-121 |
| 4 | g2453.t113 | SUPERFAMILY | SSF56574 | Serpins | 31 | 407 | 5.89E-119 |
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 transcript has been annotated with K13963 (serpin B)
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.
