GgaINT0001188 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:26180034-26180493:+
Coord C1 exon
chrUn_random:26180034-26180190
Coord A exon
chrUn_random:26180191-26180370
Coord C2 exon
chrUn_random:26180371-26180493
Length
180 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TGCCCCGTATCTCCCCACAGATG
3' ss Score
12.41
Exon sequences
Seq C1 exon
GCTCACCACTGAGCTGCGGAGGAGCAGAGCTGCGGTGGTGCTGCAGAAGAATGTGAGGATGGTGTTGGCTCGGCGCTCCTACCTGCGTGTGCGCCGGGCTGCCCTCACCATCCAGGCCTTCAGCCGGGGGATGTTTGCTCGACGCCTCTACCGCCAG
Seq A exon
GTGGGAGCACGGCAGAGCAGTGAGTGCTGTGCACAGATGGGAGCAGTGCGCTCCTGTTTGGGGTTGGGGGTGTTTTGGTGACGGCACAGCACCGATCCCAGCACCCCCCACTGCATGCAACCACTGTCGCATTGCCCCTTGTGCTTGCTGATGATGCTGCTGCCCCGTATCTCCCCACAG
Seq C2 exon
ATGGTGCAGCACCAGAAAGCTGTGGTGCTCCAGGCTGCTGTGAGGGGTTGGTTGGTCCGCCAGCGCTACAACCGTCTGCGCGGGGCTGTGCTCTACCTGCAGTGCTGCTACCGCCGGGCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012984:ENSGALT00000021187:19
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:
PF0061222=IQ=PD(10.0=3.8),PF0061222=IQ=WD(100=39.6),PF0061222=IQ=WD(100=39.6)
A:
NA
C2:
PF0061222=IQ=WD(100=51.2),PF136431=DUF4145=PU(15.4=29.3)
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:
CCACTGAGCTGCGGAGGA
R:
CACTGCAGGTAGAGCACAGC
Band lengths:
256-436
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]