GgaINT0001187 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:26179734-26180190:+
Coord C1 exon
chrUn_random:26179734-26179945
Coord A exon
chrUn_random:26179946-26180033
Coord C2 exon
chrUn_random:26180034-26180190
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCATCTCCTGCACCCTGCAGGCT
3' ss Score
7.7
Exon sequences
Seq C1 exon
GACCCCAGCATGTACCGCTGCGGGAAGAGCAAGGTGTTCTTCCGTGCCGGCCAGGTGGCATTCCTGGAGGAGCTGCGGTGCAGCCGGCTGCGTGCAGCCTGCACACTGCTGCAGAGGCACCTGCGGGGCTGGCTGGCACGGCGCCGCTTTGGCCGCATTCGTGCTGCAGCTCTGTGCCTGCAGCGTCACACCCGGGGCATGTTGGCACGCAG
Seq A exon
GTGAGATGCGATGAGCTGAGCTTGAGGGGGGTTGGGGGGGGGTTTTGTGGGGTTCTGCCCCCCTGTGCTCATCTCCTGCACCCTGCAG
Seq C2 exon
GCTCACCACTGAGCTGCGGAGGAGCAGAGCTGCGGTGGTGCTGCAGAAGAATGTGAGGATGGTGTTGGCTCGGCGCTCCTACCTGCGTGTGCGCCGGGCTGCCCTCACCATCCAGGCCTTCAGCCGGGGGATGTTTGCTCGACGCCTCTACCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012984:ENSGALT00000021187:18
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:
PF0006316=Myosin_head=PD(2.8=19.7),PF0061222=IQ=WD(100=29.6),PF0061222=IQ=PU(85.0=23.9)
A:
NA
C2:
PF0061222=IQ=PD(10.0=3.8),PF0061222=IQ=WD(100=39.6),PF0061222=IQ=WD(100=39.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCACACTGCTGCAGAGG
R:
ACATTCTTCTGCAGCACCACC
Band lengths:
168-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]