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_4 g15893 g15893.t2 isoform g15893.t2 7197596 7204062
chr_4 g15893 g15893.t2 exon g15893.t2.exon1 7197596 7198943
chr_4 g15893 g15893.t2 cds g15893.t2.CDS1 7198643 7198943
chr_4 g15893 g15893.t2 exon g15893.t2.exon2 7203764 7204062
chr_4 g15893 g15893.t2 cds g15893.t2.CDS2 7203764 7203777
chr_4 g15893 g15893.t2 TSS g15893.t2 NA NA
chr_4 g15893 g15893.t2 TTS g15893.t2 NA NA

Sequences

>g15893.t2 Gene=g15893 Length=1647
GGTAAATAAAATTCAAATATTATTTAATTTAATGTTACTGCATGGCTTTTTGTTTTCATT
AAAAATATGAAAGTAAATTCCAATTAATATTCGTATGAATCTTAATCTATAAATCTTTGC
GATAACAAAGTTGTAAGGAAAAATAAAGTGAATAAATTTTAGTAGCTGGATTTTTAAATA
TACAAAAATAATTCATAAAAATTTCTTTGATAATTTCTTAAATGTTTGCTATATAAATTT
TATTAAAAACTTTTTTTTTTGTTATTAAAAACAAACTTTATTCTTCATTTTCTTTCAAAT
TTTATGAATGTTTGTAGCTTTTATTATGACACTAAAATTTTTTGTTTTAATCGAAACCTA
AAAACCTTAATATTTTAAAGATTTTAAAATTTCAATCGAAGGAAATTCTTTGTATGATTT
TTTTTTACATTTTCATATCATCCTGATTACGCAACTATTTCATAGATTTTCAATATTTTT
CCATTTCAAATTTAAGCAATAAATGTTACAAAATATTTTAACTATTATGTCAAAAGTTCC
TTCTAAAAATTATATCTTAATTTAAATAAAAGAACGTCAAAAAATTTAAAAAATTTTTAG
GTCAAATAACTTTAAATTGTATAACTGAATTAAGTAAATATTTTTTTTGTTATATAAAAT
TTGTGTCATCATAGACAGAGTTGGAAAAGTAGCTACCTACTTTACCTACTTTTCATATAA
AAATCTACTTTCTACTTTTATTTTATATGAAAAGTAGATCTACTTTTCCAACTATGAATT
TCATAGAAAAAAAGTTTGAAAAAATTTTTAGAAAATTAATTTCTCTCTCATTAAGGCTTA
TTCAGCAGCTGGTGCGCTTGAAGGATCAATATCACTCTCACGAAGAACGCCAGCAATACA
ATTGTCCATCCAACAGTTTATAGACTGCAATTACGATGCGAAAATCGGAAATTTTGGCTG
TGATGTGAGTAAATAGTCGTGACTTTTTTGAACTTTATATTATTATCACGAATTTAAAAT
ATTTTACTTTTTTTTCAGGGAGGTTTTATGAATGTTGCTCTATTTTATTCCAGCAAATTT
GATATAACTACTGGTGTTCGTTATCCGTATATGGAAGCAAGAAATAATTGCAGTTATACC
AAACCGCAAACAAAATTTGTTTTATCATCGCCAGTTCAAATTCCAAAAGGTGATGAAGAT
GCTTTAAAAGTTGCTGTTGCAACTATAGGACCGGTTGCTACAGCCATGGATGGTGATCAT
GCTTCTTTTTATAGCTATTCAAGTGGTGTTTATTATGAACCTAATTGTACTCAATGGGTT
AATCATGGTGGTAAATATTTTAAAAACAACCTAATTTATTAGAAAATCTTTTATGACTGA
CGATGATGATAAATAATAATATCAAATGATTGAGTGGCAAAAGTAAATAAAAACAAAACT
AAAATGAACGCACTCAAAAATATTTAAGAACGCATGCAAAAAAAGTTTCTTCTCTATTTG
AATTCTTTCTTGTTGATATAAATTAAAATTATAAATTTTGTATGAAAATTTGATAAATTT
TTTAATTCTAATCACTTTAAAACTTTAGTTTTTTCAATTTTAAAAAAAATTTATGATATA
AATTCAGTTTTATTATTGCTTTCTAAT

>g15893.t2 Gene=g15893 Length=104
MNVALFYSSKFDITTGVRYPYMEARNNCSYTKPQTKFVLSSPVQIPKGDEDALKVAVATI
GPVATAMDGDHASFYSYSSGVYYEPNCTQWVNHGGKYFKNNLIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g15893.t2 Gene3D G3DSA:3.90.70.10 Cysteine proteinases 1 96 0
2 g15893.t2 PANTHER PTHR12411 CYSTEINE PROTEASE FAMILY C1-RELATED 9 94 0
3 g15893.t2 PANTHER PTHR12411:SF525 CATHEPSIN S 9 94 0
1 g15893.t2 Pfam PF00112 Papain family cysteine protease 2 94 0
4 g15893.t2 SUPERFAMILY SSF54001 Cysteine proteinases 3 94 0

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:0008234 cysteine-type peptidase 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