Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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.t7 TSS g5714.t7 11344235 11344235
chr_2 g5714 g5714.t7 isoform g5714.t7 11344881 11346015
chr_2 g5714 g5714.t7 exon g5714.t7.exon1 11344881 11345273
chr_2 g5714 g5714.t7 exon g5714.t7.exon2 11345330 11346015
chr_2 g5714 g5714.t7 cds g5714.t7.CDS1 11345341 11346015
chr_2 g5714 g5714.t7 TTS g5714.t7 11346027 11346027

Sequences

>g5714.t7 Gene=g5714 Length=1079
GATATTATAAAGATTCACTCGTTCAATGTCCATCTGATGTGCTTAAAGGTCAAACAATAA
CATTCACATGTTATAGAGAGAATTTTTTGATTCCATGTGATGATTATATTTTTGCAAATG
ATACAGCTCAAATTAATTGTAAACCTGGTTATGAATATCCACAAGTTAGTGGCATACAAA
CTAAAATTGAATGTAAACGAAATGGAAAATGGAGTGCACCTATTTTTGAATGTGTTCCAA
AATGTGGTCGTGTAACGAAAAAGGCTAAAGCTTTAGTGATTCATGGTAGTGATACAGAAA
TATTAGAATTTCCATGGAATATTGCAATATATCATTCAAATATATTGATATGTAGTGGCA
GCATTCTTTCAGAACGAATTGTATTATCAGCTGCTCATTGTTTCATGAAAGAAACATCAC
ATGGCATTGAACAATATCCATTAGAAAAGTATGAATTAATTGCTGGAAAATATTTTCGTG
ATATTGATGCAATTGAAAGTCATCAAATTCAACGATTTAAAGTAGAAAAAGTGAAAATTC
ATGATGCATATTATGGCTTCATAGGGAATTATGATGCTGATATTACAATTATAACTCTCG
ATAGATCTCTCGTTTATCAAACACATATTGCGCCTGTGTGTCTTAATTTAGAACTTAAAA
CACTTGCTGAAAAACAAGTTCCGCAACATGGAACTTTAGGAATTGTGGCAGGTTATGGTT
ATACAGAAGCTGATGGAGCTCCAAGTGATCGTTTGAAAAAAATTGAACTGCCAATTGTTG
ATATAAAAGTCTGTAAGCAAGAAGCACCTGATAATTTCAAATCATTTGTGACAAGTGATA
AATTTTGTGCGGGATATAATGATGGATCAGGCGCAGTTTGTAAAGGTGATAGTGGTGCAG
GATTTACAACAGGAAAAATTATAGGTGATGAAACAATTTATTTTATTCATGGTATTGTAA
GCAATACTCGAGCAGTAAATGGTGGTTGTGATTTAAATTTTTATGCAATGTTTACTCATG
TACAAAATTATGTTGACATGATTAAAGAAGAAATAAGACTTTCAAAAATTGATAAATAA

>g5714.t7 Gene=g5714 Length=224
MKETSHGIEQYPLEKYELIAGKYFRDIDAIESHQIQRFKVEKVKIHDAYYGFIGNYDADI
TIITLDRSLVYQTHIAPVCLNLELKTLAEKQVPQHGTLGIVAGYGYTEADGAPSDRLKKI
ELPIVDIKVCKQEAPDNFKSFVTSDKFCAGYNDGSGAVCKGDSGAGFTTGKIIGDETIYF
IHGIVSNTRAVNGGCDLNFYAMFTHVQNYVDMIKEEIRLSKIDK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5714.t7 CDD cd00190 Tryp_SPc 6 215 0.000
6 g5714.t7 Gene3D G3DSA:2.40.10.10 - 4 222 0.000
2 g5714.t7 PANTHER PTHR24260 - 9 217 0.000
3 g5714.t7 PANTHER PTHR24260:SF129 MODULAR SERINE PROTEASE 9 217 0.000
1 g5714.t7 Pfam PF00089 Trypsin 34 213 0.000
7 g5714.t7 ProSiteProfiles PS50240 Serine proteases, trypsin domain profile. 1 218 16.742
5 g5714.t7 SMART SM00020 trypsin_2 18 213 0.000
4 g5714.t7 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.t7; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5714.t7.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.

Raw TPM values