General information for g2453.t40
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t40 | TTS | g2453.t40 | 18033403 | 18033403 |
| chr_3 | g2453 | g2453.t40 | isoform | g2453.t40 | 18033488 | 18040714 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon1 | 18033488 | 18033890 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS1 | 18033757 | 18033890 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon6 | 18040582 | 18040641 |
| chr_3 | g2453 | g2453.t40 | cds | g2453.t40.CDS6 | 18040582 | 18040630 |
| chr_3 | g2453 | g2453.t40 | exon | g2453.t40.exon7 | 18040698 | 18040714 |
| chr_3 | g2453 | g2453.t40 | TSS | g2453.t40 | 18040724 | 18040724 |
Sequences
>g2453.t40 Gene=g2453 Length=1530
TAAATTTATAAACACAGTAAACATTTTCATGCATAAAGTTCTTTCAATTCTACAATTCAG
TAATCAATTTGAAACAGTAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATC
AATGGCGTCACCCTCTGAAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGC
TAAATTGTACCAAAACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTC
AGTTCAAACAGCCGTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAAT
GTTAAAAGGTCTCGAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACG
ATTTGGCGAGAGCGTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGAT
GAAAGGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGA
AGCTGAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGT
TGAAAATCAAACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGA
CACACGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGA
TCCAAAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGA
TTTCATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGC
ATTGGAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACG
CACTGGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAAC
AAAGATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACAT
TGAATTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCA
ATTTGATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGC
CTTCATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCCATCAAAGTAGT
TGCACTAAGTGCGATTATTGAAGAAGATATTGATTTTCACGTCAACCATCCATTCCAATT
TGTAATTATTGATAAGAGTTCAAAATCACCAATTTTTATTGGACGTGTCAAAAGATTTTA
AAATATATATGAATGAATTTATGAAATATATTTATTTTATGCATTTAATATTTAAAATTA
AGAAATTTGTCTTGACAATGAAGATTTTAATTTTTTCATTTGGGATTAACAATGAGATTG
ATGATAAAAATGACTTGAAATTTCTTTCTTATTCATTTTATTAGGAATGGCATTTAACAT
GATACGACCAGCAATGCCTAGACCTTTAATAATTTTTAAAGCTGATCATTCATTTTTATT
TATGTTAAAGAACAGAATGGAAAGTTTATT
>g2453.t40 Gene=g2453 Length=410
MHKVLSILQFSNQFETVILSVCALTIVLNASMASPSEIEQKFSKSASNFAAKLYQNSIQG
KTGNVIISPVSVQTAVTLAMFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTN
GLKIANKIYVMKGYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIK
NLISPDSLDADTRMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFK
YGRFDDLDATALELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNV
ELPKFKIEFDIELTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGA
EAAAATAIKVVALSAIIEEDIDFHVNHPFQFVIIDKSSKSPIFIGRVKRF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g2453.t40 | CDD | cd19601 | serpin42Da-like | 45 | 406 | 2.02054E-156 |
| 7 | g2453.t40 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 51 | 372 | 3.1E-122 |
| 6 | g2453.t40 | Gene3D | G3DSA:2.30.39.10 | - | 207 | 406 | 3.1E-122 |
| 2 | g2453.t40 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 42 | 407 | 4.0E-92 |
| 3 | g2453.t40 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 42 | 407 | 4.0E-92 |
| 1 | g2453.t40 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 45 | 407 | 1.4E-116 |
| 9 | g2453.t40 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 33 | - |
| 10 | g2453.t40 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 16 | - |
| 11 | g2453.t40 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 17 | 28 | - |
| 12 | g2453.t40 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 29 | 33 | - |
| 8 | g2453.t40 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 410 | - |
| 5 | g2453.t40 | SMART | SM00093 | serpin2 | 51 | 410 | 4.1E-125 |
| 4 | g2453.t40 | SUPERFAMILY | SSF56574 | Serpins | 31 | 407 | 7.72E-124 |
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.
