General information for g2453.t34
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alaserpin.
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.t34 | TTS | g2453.t34 | 18033055 | 18033055 |
| chr_3 | g2453 | g2453.t34 | isoform | g2453.t34 | 18033269 | 18040157 |
| chr_3 | g2453 | g2453.t34 | exon | g2453.t34.exon1 | 18033269 | 18033890 |
| chr_3 | g2453 | g2453.t34 | cds | g2453.t34.CDS1 | 18033757 | 18033890 |
| chr_3 | g2453 | g2453.t34 | exon | g2453.t34.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t34 | cds | g2453.t34.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t34 | exon | g2453.t34.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t34 | cds | g2453.t34.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t34 | exon | g2453.t34.exon4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t34 | cds | g2453.t34.CDS4 | 18039768 | 18039903 |
| chr_3 | g2453 | g2453.t34 | exon | g2453.t34.exon5 | 18040038 | 18040157 |
| chr_3 | g2453 | g2453.t34 | TSS | g2453.t34 | 18040147 | 18040147 |
Sequences
>g2453.t34 Gene=g2453 Length=1676
TAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATCAATGGCGTCACCCTCTG
AAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAATTGTACCAAGTGA
AACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTTCAAACAGCC
GTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTAAAAGGTCTC
GAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGATTTGGCGAGAGC
GTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGAAAGGCTATTCA
GTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCTGAAGATGTA
AATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAAAATCAAACA
AATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACACGTATGGTT
CTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCAAAAGCAACA
TTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTCATGAAAATT
AAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTGGAATTGCCT
TACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACTGGATTGGCT
GAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAGATGTATTCG
GAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAATTGACCGAG
CCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTTGATGAATTG
CTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTCATTGAAGTC
AATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCCATCAAAGTAGTTGCACTAAGTGCG
ATTATTGAAGAAGATATTGATTTTCACGTCAACCATCCATTCCAATTTGTAATTATTGAT
AAGAGTTCAAAATCACCAATTTTTATTGGACGTGTCAAAAGATTTTAAAATATATATGAA
TGAATTTATGAAATATATTTATTTTATGCATTTAATATTTAAAATTAAGAAATTTGTCTT
GACAATGAAGATTTTAATTTTTTCATTTGGGATTAACAATGAGATTGATGATAAAAATGA
CTTGAAATTTCTTTCTTATTCATTTTATTAGGAATGGCATTTAACATGATACGACCAGCA
ATGCCTAGACCTTTAATAATTTTTAAAGCTGATCATTCATTTTTATTTATGTTAAAGAAC
AGAATGGAAAGTTTATTCTTAGGAAGATTGAGAAATGTTTAAAGACTTCTTTTCTGTAAG
ACAAAACAATGAGAAAAAATAAAAAAATATCTTAACCACAGCACTAAACTTTCTTTTCAA
AATTAAACAAAAAAACTTTTTTTGGTGTTTTTAGTTTAATTAACAAAATTTATACTTTTA
AATTAGATTAGAAAATTCTTGGAAAATCCTTTTTGATTTGTTTTCTTATTAAAACA
>g2453.t34 Gene=g2453 Length=331
MFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTNGLKIANKIYVMKGYSVKPT
FQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDADTRMVLVNA
IYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDATALELPYKDS
DITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFDIELTEPLKK
MGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATAIKVVALSAIIEE
DIDFHVNHPFQFVIIDKSSKSPIFIGRVKRF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2453.t34 | CDD | cd19601 | serpin42Da-like | 2 | 327 | 0e+00 |
| 7 | g2453.t34 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 2 | 286 | 0e+00 |
| 6 | g2453.t34 | Gene3D | G3DSA:2.30.39.10 | - | 123 | 283 | 0e+00 |
| 8 | g2453.t34 | Gene3D | G3DSA:2.10.310.10 | Serpins superfamily | 300 | 329 | 8e-07 |
| 2 | g2453.t34 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 38 | 328 | 0e+00 |
| 3 | g2453.t34 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 38 | 328 | 0e+00 |
| 1 | g2453.t34 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 3 | 328 | 0e+00 |
| 5 | g2453.t34 | SMART | SM00093 | serpin2 | 2 | 331 | 0e+00 |
| 4 | g2453.t34 | SUPERFAMILY | SSF56574 | Serpins | 2 | 328 | 0e+00 |
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. There were no conditions that were differentially expressed