General information for g2453.t117
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.t117 | TTS | g2453.t117 | 18036404 | 18036404 |
| chr_3 | g2453 | g2453.t117 | isoform | g2453.t117 | 18036421 | 18039975 |
| chr_3 | g2453 | g2453.t117 | exon | g2453.t117.exon1 | 18036421 | 18036585 |
| chr_3 | g2453 | g2453.t117 | exon | g2453.t117.exon2 | 18038523 | 18038739 |
| chr_3 | g2453 | g2453.t117 | cds | g2453.t117.CDS1 | 18038579 | 18038739 |
| chr_3 | g2453 | g2453.t117 | exon | g2453.t117.exon3 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t117 | cds | g2453.t117.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t117 | exon | g2453.t117.exon4 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t117 | cds | g2453.t117.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t117 | exon | g2453.t117.exon5 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t117 | cds | g2453.t117.CDS4 | 18039768 | 18039903 |
| chr_3 | g2453 | g2453.t117 | TSS | g2453.t117 | 18040147 | 18040147 |
Sequences
>g2453.t117 Gene=g2453 Length=1316
AACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTTCAAACAGCC
GTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTAAAAGGTCTC
GAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGATTTGGCGAGAGC
GTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGAAAGGCTATTCA
GTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGATGTA
AATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAAACA
AATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATGGTT
CTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCAACA
TTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAAATT
AAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTGCCT
TACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTGGCT
GAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTATTCG
GAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACCGAG
CCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAATTG
CTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAAGTC
AATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGGTATCAGAATTCAAAAACGCAGCCTC
TCTTTTCACCATCTATTCATTGCCGACCATCCATTCTTATTTGCATTGCGCTGTGTTAAA
TCGAATTTTATTTATTTTGCTGGCCGCTTAAGTCATCTCGATGAAGATTTGACACAACAG
CACGACGAATTATAAAGAAATCTCAATTTGAATGTGCATTACCGAATTCGGATAAATGTC
AATAAAAACAACAATGATTATGATGTCAAGATGTGCAATGATTTCTCGTTCTCAACAATT
TATTGCGAACCGTCCATTTATTTTTGCATTGAAATTTGTTGCAGATGCTTTGTTTGTTGG
AAGAATCGAAAATTTTAATTGAAATAAAGTATTACATGCTTGAATTCAATAAAAAT
>g2453.t117 Gene=g2453 Length=340
MFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTNGLKIANKIYVMKGYSVKPT
FQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDADTRMVLVNA
IYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDATALELPYKDS
DITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFDIELTEPLKK
MGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATGIRIQKRSLSFHH
LFIADHPFLFALRCVKSNFIYFAGRLSHLDEDLTQQHDEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2453.t117 | CDD | cd19601 | serpin42Da-like | 2 | 325 | 1.695E-142 |
| 8 | g2453.t117 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 2 | 273 | 4.6E-113 |
| 7 | g2453.t117 | Gene3D | G3DSA:2.30.39.10 | - | 123 | 324 | 4.6E-113 |
| 2 | g2453.t117 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 38 | 327 | 3.8E-82 |
| 3 | g2453.t117 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 38 | 327 | 3.8E-82 |
| 1 | g2453.t117 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 3 | 327 | 1.0E-102 |
| 6 | g2453.t117 | ProSitePatterns | PS00284 | Serpins signature. | 302 | 312 | - |
| 5 | g2453.t117 | SMART | SM00093 | serpin2 | 2 | 329 | 3.3E-103 |
| 4 | g2453.t117 | SUPERFAMILY | SSF56574 | Serpins | 2 | 326 | 3.67E-109 |
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.
