DreINT0120789 @ danRer10
Intron Retention
Gene
ENSDARG00000053158 | prss56
Description
protease, serine, 56 [Source:ZFIN;Acc:ZDB-GENE-070912-579]
Coordinates
chr2:45203417-45205120:+
Coord C1 exon
chr2:45203417-45203525
Coord A exon
chr2:45203526-45204963
Coord C2 exon
chr2:45204964-45205120
Length
1438 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TCTCCCTCTTTATATTGTAGTTT
3' ss Score
9.25
Exon sequences
Seq C1 exon
GAGCCGCAGTGAGAGTTACTGGACTGCAGTAGTGGGAGAGTTTGACCTCACTAAAACTGACGCGGATGAGCAGATCATGAAGGTCAATCGCATTATTACCCACCCGAAG
Seq A exon
GTAAACACATACTGTAAACACATTAACAATGCATGCTTAAAAGAACACTACACTTTGGTAGTGGCTCATTTTACAACACCCCTAGAGTTAAACAGTTGAGTTTTACCAATACTAAATCAATTTAGTCAATCTTCGGTTCTGACGGGAGCACTTTTAGCTTAGCTAAGCATAAATCATTGAATTGGATTAGACCATTAGCATCTCACTCAAAAACTTCAGAAAAAATTAGCGATAATTTTCCTACTTAAATCTCAACTCTTCTTAAGTTAGATTACATTGTATGCTAAAACCAATGGAAAATGAAAACTTTCTATTTTTTTTGGCCGATATCGCTAGGAACTATACCATAGGTCTCAAGCTCGATTCCTGGAGGGCCGCAGCTCTGCACAGTTTTACTCCAACCCTAATCAAACACAGCAGATTCAATTAATCAAGGTGTTCAAAACTACTAGAAAATATTAAGCATGTGTGTGAGCTAGAGGTGATTGGAGCTAAACTATGCAGAGCTGCGGCCCTCCAGGAATTGAGTTTGAGTCCATTGAACTATACTCTCATTCTGGTGTAATAGTTAAAGGAATATTGCTGCCGTACCATGGCTGCAGCATGTAAAATGACAGTATGCAGCACCTGAAAGTAGTCCACAACTAAGTAAGAGCTGAAACGCTTTTTTTGAGATGCTAATGGTCTAATCTGTTTCAATGATTTAGGCTAAGTGAAACTAAAAGTCCCTTTAAGGCAAATAATTTCACTCAACCCCCAACTTTGAAATGTCTCTCGGGAAAACTGTCTGAAAGGGAAAACATCAAATTCTTAAAAATTGCTTGCCAAGCTTACGATTAAATAATTTATATTAGGAATCACTATTAAAACAAACTACAACTGTGCCTTTAGTTTCAGTTTTAAACATTCGAATCACACAAAATCTGCAGAAACTCACGTCTGCTCCGAGTCCCTCCCTCGAAGAATTCTTAGTCTATGGCGATCCATGATTGGCTCCTGTACTCAGAGGCGGGGCTTCATTTGCCATCTTGAATTTTATTCTTTTCCGTTACATAAGCAAACCTGCGGTCGTTGAGTGCGTGAAGTGTCCATCATTACACACTTTATTTTAGCGGCTGAATGAGTGCATCATCCGGGTAATTAAAGTGCACTTATTATTTTTTGAGTTTTCAGTGTGAACACACTACTTACACTATTTATACTACAAAATGGCGTAGAATAGTGCATAAGTATGCGATTTGGGACGCAGCTTATATATGAGGGACATGTCTTGTGTATTCTATAGTCTTTGTAAAAGTACCATCACCAGACACAGAGATCGGCTGAATGGATTAAAAACTGGTAAAACCCAGTAGTTTAACTCTAGGGGACTTGAAAAACGAGCCTTTAAAACACATTTTAAACATTTTAAAATAACCTCTCCCTCTTTATATTGTAG
Seq C2 exon
TTTAACCCAAAGACGTTCAATAATGACATTGCTCTGGTGGAGCTGAGCTCTCCGGTGATTCTGTCTGAACGGGTCACTCCTGTCTGTCTGCCCTCTGACTTGGATCCTCCGGCTGGCACACCCTGTTTAGTGGCCGGCTGGGGATCTTTGTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053158:ENSDART00000075152:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(25.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(36.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGCAGTGAGAGTTACTG
R:
CATACAAAGATCCCCAGCCGG
Band lengths:
263-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]