General information for g5714.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5714 is located on chr_2: 11345331..11346038 (+ 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 | g5714 | g5714.t6 | TSS | g5714.t6 | 11344235 | 11344235 |
| chr_2 | g5714 | g5714.t6 | isoform | g5714.t6 | 11344331 | 11346015 |
| chr_2 | g5714 | g5714.t6 | exon | g5714.t6.exon1 | 11344331 | 11344413 |
| chr_2 | g5714 | g5714.t6 | exon | g5714.t6.exon2 | 11344596 | 11344800 |
| chr_2 | g5714 | g5714.t6 | exon | g5714.t6.exon3 | 11344860 | 11345273 |
| chr_2 | g5714 | g5714.t6 | exon | g5714.t6.exon4 | 11345330 | 11346015 |
| chr_2 | g5714 | g5714.t6 | cds | g5714.t6.CDS1 | 11345341 | 11346015 |
| chr_2 | g5714 | g5714.t6 | TTS | g5714.t6 | 11346027 | 11346027 |
Sequences
>g5714.t6 Gene=g5714 Length=1388
GAGTTTTAAAATTCTTTTTAATATTATTGTGCATATTTTCCATAATTGTGCAAGTGAAAT
GTGGACTCTTTAAGAAAGTTGGAAGCTTTTTAGGTGTCAAAAAAGAAAGTGATGACAGTG
GTGAGGAAAATATAAATGCTCAAGTTGATACGGCTTATAAATTTGGTTCTTTAATCATTA
AACCGGCTTTAAATTTACTACTTGGAAGTGATGATACAGATAGTTCAATAACTTCACAAA
ATCCTCAACGTCAAGATAAATTAGAGTCAACAACTCCATATAATTATGGAAACTATGCAT
TTTCACCAGGATATTATAAAGATTCACTCGTTCAATGTCCATCTGATGTGCTTAAAGGTC
AAACAATAACATTCACATGTTATAGAGAGAATTTTTTGATTCCATGTGATGATTATATTT
TTGCAAATGATACAGCTCAAATTAATTGTAAACCTGGTTATGAATATCCACAAGTTAGTG
GCATACAAACTAAAATTGAATGTAAACGAAATGGAAAATGGAGTGCACCTATTTTTGAAT
GTGTTCCAAAATGTGGTCGTGTAACGAAAAAGGCTAAAGCTTTAGTGATTCATGGTAGTG
ATACAGAAATATTAGAATTTCCATGGAATATTGCAATATATCATTCAAATATATTGATAT
GTAGTGGCAGCATTCTTTCAGAACGAATTGTATTATCAGCTGCTCATTGTTTCATGAAAG
AAACATCACATGGCATTGAACAATATCCATTAGAAAAGTATGAATTAATTGCTGGAAAAT
ATTTTCGTGATATTGATGCAATTGAAAGTCATCAAATTCAACGATTTAAAGTAGAAAAAG
TGAAAATTCATGATGCATATTATGGCTTCATAGGGAATTATGATGCTGATATTACAATTA
TAACTCTCGATAGATCTCTCGTTTATCAAACACATATTGCGCCTGTGTGTCTTAATTTAG
AACTTAAAACACTTGCTGAAAAACAAGTTCCGCAACATGGAACTTTAGGAATTGTGGCAG
GTTATGGTTATACAGAAGCTGATGGAGCTCCAAGTGATCGTTTGAAAAAAATTGAACTGC
CAATTGTTGATATAAAAGTCTGTAAGCAAGAAGCACCTGATAATTTCAAATCATTTGTGA
CAAGTGATAAATTTTGTGCGGGATATAATGATGGATCAGGCGCAGTTTGTAAAGGTGATA
GTGGTGCAGGATTTACAACAGGAAAAATTATAGGTGATGAAACAATTTATTTTATTCATG
GTATTGTAAGCAATACTCGAGCAGTAAATGGTGGTTGTGATTTAAATTTTTATGCAATGT
TTACTCATGTACAAAATTATGTTGACATGATTAAAGAAGAAATAAGACTTTCAAAAATTG
ATAAATAA
>g5714.t6 Gene=g5714 Length=224
MKETSHGIEQYPLEKYELIAGKYFRDIDAIESHQIQRFKVEKVKIHDAYYGFIGNYDADI
TIITLDRSLVYQTHIAPVCLNLELKTLAEKQVPQHGTLGIVAGYGYTEADGAPSDRLKKI
ELPIVDIKVCKQEAPDNFKSFVTSDKFCAGYNDGSGAVCKGDSGAGFTTGKIIGDETIYF
IHGIVSNTRAVNGGCDLNFYAMFTHVQNYVDMIKEEIRLSKIDK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5714.t6 | CDD | cd00190 | Tryp_SPc | 6 | 215 | 0.000 |
| 6 | g5714.t6 | Gene3D | G3DSA:2.40.10.10 | - | 4 | 222 | 0.000 |
| 2 | g5714.t6 | PANTHER | PTHR24260 | - | 9 | 217 | 0.000 |
| 3 | g5714.t6 | PANTHER | PTHR24260:SF129 | MODULAR SERINE PROTEASE | 9 | 217 | 0.000 |
| 1 | g5714.t6 | Pfam | PF00089 | Trypsin | 34 | 213 | 0.000 |
| 7 | g5714.t6 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 218 | 16.742 |
| 5 | g5714.t6 | SMART | SM00020 | trypsin_2 | 18 | 213 | 0.000 |
| 4 | g5714.t6 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 28 | 217 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5714/g5714.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5714.t6.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.
