DreINT0165420 @ danRer10
Intron Retention
Gene
ENSDARG00000029841 | tmprss9
Description
transmembrane protease, serine 9 [Source:ZFIN;Acc:ZDB-GENE-050208-573]
Coordinates
chr22:10730642-10730892:+
Coord C1 exon
chr22:10730642-10730683
Coord A exon
chr22:10730684-10730778
Coord C2 exon
chr22:10730779-10730892
Length
95 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGA
5' ss Score
1.43
3' ss Seq
GATGATCTCTTTTATGCAAGGTA
3' ss Score
4.57
Exon sequences
Seq C1 exon
GAGCCAGTGGAAAGTCATTCTACGAGATCGGGAATGATATAA
Seq A exon
GTATGACAATTTTGATTATATATACAAAATTACTAAAGGTTTATTGAAAGCTCAGTGTGCTCAGATGCCTCTTTTGATGATCTCTTTTATGCAAG
Seq C2 exon
GTAAATGTCCTGATAGCACGTTTACCTGTGACAATGGCGAGTGCATCACAAAGCCAAATCCCGAATGTGACTACATAACGGACTGCACTGATGGTTCAGATGAAACCTTTTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029841:ENSDART00000145551:6
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:
PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=100.0)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAGTGGAAAGTCATTCTACG
R:
AGCAAAAGGTTTCATCTGAACCA
Band lengths:
155-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]