General information for g2453.t59
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.t59 | TTS | g2453.t59 | 18033403 | 18033403 |
| chr_3 | g2453 | g2453.t59 | isoform | g2453.t59 | 18034087 | 18047135 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon1 | 18034087 | 18034215 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS1 | 18034091 | 18034215 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS2 | 18038878 | 18039019 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS3 | 18039101 | 18039684 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS4 | 18039768 | 18039975 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS5 | 18040042 | 18040157 |
| chr_3 | g2453 | g2453.t59 | exon | g2453.t59.exon6 | 18047123 | 18047135 |
| chr_3 | g2453 | g2453.t59 | cds | g2453.t59.CDS6 | 18047123 | 18047135 |
| chr_3 | g2453 | g2453.t59 | TSS | g2453.t59 | 18047308 | 18047308 |
Sequences
>g2453.t59 Gene=g2453 Length=1192
ATGCTGCAAAAATTAATTCTCTCAGTTTGTGCTCTGACTATCGTGCTAAACGCATCAATG
GCGTCACCCTCTGAAATCGAACAAAAGTTTTCAAAATCAGCCAGCAACTTTGCTGCTAAA
TTGTACCAAAACTCAATTCAAGGAAAAACTGGCAATGTAATTATTTCACCTGTCTCAGTT
CAAACAGCCGTCACTTTGGCTATGTTTGGTGCTGCTGGTGAGACCAAGCAAGAAATGTTA
AAAGGTCTCGAATATCAGGGTTTCACTGATCAAATAATTGCTGATAACTATCAACGATTT
GGCGAGAGCGTCGCAAAGACTAATGGATTGAAAATCGCTAATAAGATTTATGTGATGAAA
GGCTATTCAGTCAAGCCAACATTCCAGCAAGTCGCAACAAAGAGTTTCAATTCAGAAGCT
GAAGATGTAAATTTCGCACAAAGTAAAGACTCAGCTGGCAAAATCAATACATGGGTTGAA
AATCAAACAAATAATAAAATTAAAAATCTTATCTCACCTGATTCATTGGATGCTGACACA
CGTATGGTTCTTGTAAATGCCATTTACTTCAAAGGATTCTGGACCTATCAATTTGATCCA
AAAGCAACATTCAAAGCACCATTCTTTCTCAATGATAATGATAAAGTTGATGTTGATTTC
ATGAAAATTAAGAAACATTTCAAATATGGACGATTTGATGATCTTGATGCAACTGCATTG
GAATTGCCTTACAAAGATTCTGATATTACAATGTTGATAATTTTACCAAATAAACGCACT
GGATTGGCTGAATTGGAGAGCAAATTGGACACAATTGACTTCAATGAGCTCACAACAAAG
ATGTATTCGGAAGAAGTTAATGTTGAATTGCCAAAGTTTAAAATTGAATTTGACATTGAA
TTGACCGAGCCATTAAAGAAGATGGGAATGGAGAAAATGTTCTCAGATGCTGCTCAATTT
GATGAATTGCTTACATCGACTGAACCTCTCAAGGTTTCACAAGTTGTTCATAAAGCCTTC
ATTGAAGTCAATGAAGAAGGTGCTGAAGCAGCTGCTGCTACAGAACTCATTGGGACGGCT
TTAAGTATAAGACCACTTCCACGACAATTCAAATGCAGACAACCATTTTTGTTTACAATT
AAAAAAGAAAAATCTGCAATCTTTTTCGGAAGAATTAAAAAATTTTAAAATT
>g2453.t59 Gene=g2453 Length=395
MLQKLILSVCALTIVLNASMASPSEIEQKFSKSASNFAAKLYQNSIQGKTGNVIISPVSV
QTAVTLAMFGAAGETKQEMLKGLEYQGFTDQIIADNYQRFGESVAKTNGLKIANKIYVMK
GYSVKPTFQQVATKSFNSEAEDVNFAQSKDSAGKINTWVENQTNNKIKNLISPDSLDADT
RMVLVNAIYFKGFWTYQFDPKATFKAPFFLNDNDKVDVDFMKIKKHFKYGRFDDLDATAL
ELPYKDSDITMLIILPNKRTGLAELESKLDTIDFNELTTKMYSEEVNVELPKFKIEFDIE
LTEPLKKMGMEKMFSDAAQFDELLTSTEPLKVSQVVHKAFIEVNEEGAEAAAATELIGTA
LSIRPLPRQFKCRQPFLFTIKKEKSAIFFGRIKKF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g2453.t59 | CDD | cd19601 | serpin42Da-like | 33 | 391 | 6.04905E-149 |
| 8 | g2453.t59 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 49 | 340 | 1.1E-118 |
| 7 | g2453.t59 | Gene3D | G3DSA:2.30.39.10 | - | 190 | 390 | 1.1E-118 |
| 2 | g2453.t59 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 30 | 393 | 5.1E-89 |
| 3 | g2453.t59 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 30 | 393 | 5.1E-89 |
| 1 | g2453.t59 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 33 | 392 | 1.0E-111 |
| 10 | g2453.t59 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 11 | g2453.t59 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 12 | g2453.t59 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 13 | g2453.t59 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 9 | g2453.t59 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 395 | - |
| 16 | g2453.t59 | SMART | SM00093 | serpin2 | 39 | 395 | 1.4E-118 |
| 4 | g2453.t59 | SUPERFAMILY | SSF56574 | Serpins | 21 | 392 | 6.15E-119 |
| 6 | g2453.t59 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 15 | g2453.t59 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 5 | g2453.t59 | 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.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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