General information for g5463.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine protease snake.
Parent gene
- The parent gene g5463 is located on chr_2: 9725593..9726995 (- 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_2 | g5463 | g5463.t1 | TTS | g5463.t1 | 9725568 | 9725568 |
| chr_2 | g5463 | g5463.t1 | isoform | g5463.t1 | 9725593 | 9726995 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon1 | 9725593 | 9725775 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS1 | 9725593 | 9725775 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon2 | 9725908 | 9726335 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS2 | 9725908 | 9726335 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon3 | 9726393 | 9726434 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS3 | 9726393 | 9726434 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon4 | 9726502 | 9726579 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS4 | 9726502 | 9726579 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon5 | 9726651 | 9726773 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS5 | 9726651 | 9726773 |
| chr_2 | g5463 | g5463.t1 | exon | g5463.t1.exon6 | 9726836 | 9726995 |
| chr_2 | g5463 | g5463.t1 | cds | g5463.t1.CDS6 | 9726836 | 9726995 |
| chr_2 | g5463 | g5463.t1 | TSS | g5463.t1 | 9727169 | 9727169 |
Sequences
>g5463.t1 Gene=g5463 Length=1014
ATGGAACAAGTGAGACTAAAGTTAGTTCGTACAAATCCTCCAACTATCTGTAGTCAAACA
GACCGATCAGTTTGTTGTCCGCTTCCTTCAACAACTACAACTACGACTTCAACAACAAAA
CCATCGCCATCACGTTCAATGCAAAGAATAAGTGAACAAAAATGCAGGGAATATGGAAAA
AGTGTTATTCAAATTACTAAAGTGGCATCTCTCATGCTGGGAGAACCACATGTAGATATA
GTAGTAGACAAGTGCAAACATAAAAGTGTTTCGTTGATTGTTGGCGGGACAGAAGCTTCG
TTAGCTGAATTTCCTCATCAAGCACTTCTCGGTTATAATAATGGAGAGCCAAGTGAATGG
GGCTGTGGAGGATCGCTTATTTCACCGAAATTTGTCTTAACTGCTGCTCATTGTTTATCA
CCACGTGGATTTGGTAATGTAAAATTTGTTAGACTTGGAATGAGCAGTAGATCACAAAAT
GACAATTCAACATTAACATTTGGTGTGACGGAAATTATTCAACATCCTAATTATAATTCA
AAAACATTTAATGAAGACATTGGTTTGCTGAGACTGAATGCAACAGTTCCAATTAATGAA
TATATTTTACCCATTTGCATGCCAACGAAACTTTATAATCCAAATAAAGCGATTGCATCA
GGATTTGGTAGAACAGGCTATCAACGATCAACTTCAGATAAATTATTGAAAGTAACTTTA
GAAAAATTCACACATGCAGAATGTCAAGAAGCATTTGGAACAGCTATAACTGTGACAAAC
GATACAATGTTGTGTTACGGTCATCATACTGAAAGTAAAGATTCATGTAGTGGGGATTCT
GGCGGACCATTACAAATTTATAATGATAATGAAGTCAAGTGCACATATACGCAAATAGGA
GTCGTCAGTTTTGGTTTAAAACAATGTGGAACTGTTGGAACACCTGGGGTTTATGTTAAT
GTTTATAATTATCTCGATTGGATCGAAAAAATTGTTTGGGCAGGTGAAAGTTAA
>g5463.t1 Gene=g5463 Length=337
MEQVRLKLVRTNPPTICSQTDRSVCCPLPSTTTTTTSTTKPSPSRSMQRISEQKCREYGK
SVIQITKVASLMLGEPHVDIVVDKCKHKSVSLIVGGTEASLAEFPHQALLGYNNGEPSEW
GCGGSLISPKFVLTAAHCLSPRGFGNVKFVRLGMSSRSQNDNSTLTFGVTEIIQHPNYNS
KTFNEDIGLLRLNATVPINEYILPICMPTKLYNPNKAIASGFGRTGYQRSTSDKLLKVTL
EKFTHAECQEAFGTAITVTNDTMLCYGHHTESKDSCSGDSGGPLQIYNDNEVKCTYTQIG
VVSFGLKQCGTVGTPGVYVNVYNYLDWIEKIVWAGES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5463.t1 | CDD | cd00190 | Tryp_SPc | 93 | 331 | 4.333E-87 |
| 8 | g5463.t1 | Gene3D | G3DSA:2.40.10.10 | - | 84 | 332 | 2.0E-71 |
| 2 | g5463.t1 | PANTHER | PTHR24260:SF107 | EG:BACR7A4.3 PROTEIN-RELATED | 16 | 334 | 4.1E-67 |
| 3 | g5463.t1 | PANTHER | PTHR24260 | - | 16 | 334 | 4.1E-67 |
| 5 | g5463.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 123 | 138 | 9.8E-15 |
| 4 | g5463.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 182 | 196 | 9.8E-15 |
| 6 | g5463.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 273 | 285 | 9.8E-15 |
| 1 | g5463.t1 | Pfam | PF00089 | Trypsin | 93 | 328 | 2.0E-56 |
| 10 | g5463.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 133 | 138 | - |
| 11 | g5463.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 274 | 285 | - |
| 13 | g5463.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 93 | 333 | 30.013 |
| 12 | g5463.t1 | SMART | SM00020 | trypsin_2 | 92 | 328 | 1.9E-77 |
| 7 | g5463.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 78 | 333 | 5.48E-77 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5463/g5463.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5463.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | BP |
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.
