DreINT0165409 @ danRer10
Intron Retention
Gene
ENSDARG00000087717 | tmprss5
Description
transmembrane protease, serine 5 [Source:ZFIN;Acc:ZDB-GENE-131121-184]
Coordinates
chr15:18230770-18231652:-
Coord C1 exon
chr15:18231468-18231652
Coord A exon
chr15:18230869-18231467
Coord C2 exon
chr15:18230770-18230868
Length
599 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACT
5' ss Score
6.6
3' ss Seq
ATCTCTTTCTATATGTTTAGACA
3' ss Score
6.46
Exon sequences
Seq C1 exon
TTACAGGCTACCTCAGGTGCCCAGCTGGGTGGTTTATGCAGGTATCATAACCAGCAATTTAGCTAAACTTGCTCAATACCAAGGCTTTGCTGTGGAGAGAATCATCTACAACAAGAATTACAACCACCGGACACACGACAATGATATCGCTTTGGTGAAATTAAAAACTCCACTGAATTTTTCAG
Seq A exon
GTGACTAGTTCTTTATTACTTGCATATAATGGTTGTGCTGAACCCTGGGTTAACTCTTTATCCAATCACTACTTTTAATCTTGGGTTAAGGATTGTTTCACTTTTTTGGGGGGTTATGAAACAATACTCCAAGGGAGTAATAGCATTTGTTTTGTCCTGGTAACCCTACACAAATTTCTACAGTCATGGAAGCTCACATGCTTTATATATAAACTGTTGTTTCAGTTTTTTGGGGGAAAATGTCAGAAAAAGTATGGAAAACACAGTAATTGGGTGAAGAAGAGGCCATTTCATTGTTATCTTTAATCCAAAAAGTCTATTTATGGCTTAGCAATTTAAAATATGAGAATACTTTAATGTAAACACATTGTGTACTGCTGTACTAATAACACTAACACTGCAAATATAGAAAATATTGATGTTAATGCAGTGTATGAATACCAAAGTTTACTCGTTAACCCCAGGTATAATATAAACAAAAATTGTAATATGAGGTGAGATAACCCAGAATTCAATGCTCTCATGATTTATAATAAATAATTTTTTAAGTGAAGTGTGAATAGTCCTATATACTATGTTATCTCTTTCTATATGTTTAG
Seq C2 exon
ACACTATCAGACCTGTATGTCTACCGCAGTATGACCATGATCTACCAGGAGGAACCCAGTGCTGGATCTCTGGTTGGGGATATACACAACCGGATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087717:ENSDART00000156505:9
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(26.6=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTACAGGCTACCTCAGGTGCC
R:
CCGGTTGTGTATATCCCCAACC
Band lengths:
278-877
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]