GgaINT0049814 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36822540-36822888:-
Coord C1 exon
chr7:36822775-36822888
Coord A exon
chr7:36822645-36822774
Coord C2 exon
chr7:36822540-36822644
Length
130 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
ATGTGAGCTTTCCCTGACAGATC
3' ss Score
8.7
Exon sequences
Seq C1 exon
AAAGAGTACAAAAAAGCCTTGGAATTAGAAATTAAAGGAAAAGGTCTGTCAGAACTGGCTTTGGAAACACCTGATTTTGTGAGAGCAAAGAATGCCACTGACATTGCTAGCCAG
Seq A exon
GTCTGTGTGTATGACTCATTTATCACATGTGCTGTCTGTCTTTAAAGGAAAAAATTAGTGTGTGTTTGTTTGAATGCAAGTCATTGCTAAGATATGATGAATGCATCTAAATGTGAGCTTTCCCTGACAG
Seq C2 exon
ATCAAATACAAACAGTTGGCAGAAATGGAGAAGGCCAACTACACCAGTGTTGTCGATACTCCAGAGATCATTCATGCCCAGCAGGTCAAAAACCTTTCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:126
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=0.152
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=28.9),PF0088013=Nebulin=PU(55.2=42.1)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTTGGAATTAGAAATTAAAGGAA
R:
GGTTTTTGACCTGCTGGGC
Band lengths:
194-324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]