General information for g2453.t1
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.t1 | TTS | g2453.t1 | 18035022 | 18035022 |
| chr_3 | g2453 | g2453.t1 | isoform | g2453.t1 | 18035075 | 18047135 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon1 | 18035075 | 18035202 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS1 | 18035075 | 18035202 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t1 | exon | g2453.t1.exon6 | 18047123 | 18047135 |
| chr_3 | g2453 | g2453.t1 | cds | g2453.t1.CDS6 | 18047123 | 18047135 |
| chr_3 | g2453 | g2453.t1 | TSS | g2453.t1 | 18047308 | 18047308 |
Sequences
>g2453.t1 Gene=g2453 Length=1191
ATGCTGCAAAAATTAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATCAATG
GCGTCACCCTCTGAAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAA
TTGTACCAAAACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTT
CAAACAGCCGTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTA
AAAGGTCTCGAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGATTT
GGCGAGAGCGTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGAAA
GGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCT
GAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAA
AATCAAACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACA
CGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCA
AAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTC
ATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTG
GAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACT
GGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAG
ATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAA
TTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTT
GATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTC
ATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGCAATCATGGTTACATCT
TACAGTTTGGTCATTGGAAAAAAGATTAATTTCAAATGCGATCGTCCATTTTTATTTGCT
CTGATGAAATCTAATGAGTCATTGTTCATGGGAAGAATTCAAAAATTTTAA
>g2453.t1 Gene=g2453 Length=396
MLQKLILSVCALTIVLNASMASPSEIEQKFSKSASNFAAKLYQNSIQGKTGNVIISPVSV
QTAVTLAMFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTNGLKIANKIYVMK
GYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDADT
RMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDATAL
ELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFDIE
LTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATAIMVTS
YSLVIGKKINFKCDRPFLFALMKSNESLFMGRIQKF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g2453.t1 | CDD | cd19601 | serpin42Da-like | 33 | 392 | 3.48859E-154 |
| 8 | g2453.t1 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 49 | 340 | 5.6E-121 |
| 7 | g2453.t1 | Gene3D | G3DSA:2.30.39.10 | - | 190 | 391 | 5.6E-121 |
| 2 | g2453.t1 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 30 | 394 | 3.4E-89 |
| 3 | g2453.t1 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 30 | 394 | 3.4E-89 |
| 1 | g2453.t1 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 33 | 393 | 1.1E-112 |
| 10 | g2453.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 11 | g2453.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 12 | g2453.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 13 | g2453.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 9 | g2453.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 396 | - |
| 16 | g2453.t1 | ProSitePatterns | PS00284 | Serpins signature. | 371 | 381 | - |
| 17 | g2453.t1 | SMART | SM00093 | serpin2 | 39 | 396 | 4.9E-121 |
| 4 | g2453.t1 | SUPERFAMILY | SSF56574 | Serpins | 21 | 393 | 4.19E-120 |
| 6 | g2453.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 15 | g2453.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 5 | g2453.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 21 | - |
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.
