General information for g2453.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t4 | isoform | g2453.t4 | 18032201 | 18039684 |
| chr_3 | g2453 | g2453.t4 | exon | g2453.t4.exon1 | 18032201 | 18032418 |
| chr_3 | g2453 | g2453.t4 | cds | g2453.t4.CDS1 | 18032294 | 18032418 |
| chr_3 | g2453 | g2453.t4 | exon | g2453.t4.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t4 | cds | g2453.t4.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t4 | exon | g2453.t4.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t4 | cds | g2453.t4.CDS3 | 18039101 | 18039667 |
| chr_3 | g2453 | g2453.t4 | TSS | g2453.t4 | 18040147 | 18040147 |
| chr_3 | g2453 | g2453.t4 | TTS | g2453.t4 | NA | NA |
Sequences
>g2453.t4 Gene=g2453 Length=944
CTAATAAGATTTATGTGATGAAAGGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAA
CAAAGAGTTTCAATTCAGAAGCTGAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTG
GCAAAATCAATACATGGGTTGAAAATCAAACAAATAATAAAATTAAAAATCTTATCTCAC
CTGATTCATTGGATGCTGACACACGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGAT
TCTGGACCTATCAATTTGATCCAAAAGCAACATTCAAAGCACCATTCTTTCTCAATGATA
ATGATAAAGTTGATGTTGATTTCATGAAAATTAAGAAACATTTCAAATATGGACGATTTG
ATGATCTTGATGCAACTGCATTGGAATTGCCTTACAAAGATTCTGATATTACAATGTTGA
TAATTTTACCAAATAAACGCACTGGATTGGCTGAATTGGAGAGCAAATTGGACACAATTG
ACTTCAATGAGCTCACAACAAAGATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGT
TTAAAATTGAATTTGACATTGAATTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAA
TGTTCTCAGATGCTGCTCAATTTGATGAATTGCTTACATCGACTGAACCTCTCAAGGTTT
CACAAGTTGTTCATAAAGCCTTCATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTG
CTACAGAAATTTTAGTACAGAGAAGAATGATGACATTTGATCCAATACCGTTCAAAGCAA
ACCTTCCATTTATCTTCTTGGTTAAGGACTATGAAAAATACTTGTTTTTTGGACGAATTG
ATGAATTTTAAAATAAAAAAATGCTTAATTTAACATTTTGTAGTTCCTAATAATTTTAGA
CATTGTAAAACTTTACAATTAAAAATTTTGATTTTTTCTTCTTC
>g2453.t4 Gene=g2453 Length=277
MKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDA
DTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDAT
ALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFD
IELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATEILV
QRRMMTFDPIPFKANLPFIFLVKDYEKYLFFGRIDEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2453.t4 | CDD | cd19601 | serpin42Da-like | 1 | 273 | 0 |
| 7 | g2453.t4 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 2 | 235 | 0 |
| 6 | g2453.t4 | Gene3D | G3DSA:2.30.39.10 | - | 72 | 232 | 0 |
| 2 | g2453.t4 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 4 | 274 | 0 |
| 3 | g2453.t4 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 4 | 274 | 0 |
| 1 | g2453.t4 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 2 | 274 | 0 |
| 5 | g2453.t4 | SMART | SM00093 | serpin2 | 1 | 277 | 0 |
| 4 | g2453.t4 | SUPERFAMILY | SSF56574 | Serpins | 2 | 274 | 0 |
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.
