GgaINT0049725 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36887129-36887497:-
Coord C1 exon
chr7:36887393-36887497
Coord A exon
chr7:36887237-36887392
Coord C2 exon
chr7:36887129-36887236
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
AAAATTGTTTTCAATTTTAGAAA
3' ss Score
8.77
Exon sequences
Seq C1 exon
CATGCTTATACTCAGGCTTGGGAGAAGGATAAAACTCAAGTTCATGTGATGCCAGATACACCAGATATTCTACAGGCAAAGCAGAACAAGGCGAACTACAGTCAG
Seq A exon
GTAGAGCTTTTTAATGCTTTCTTTTACATTTCAAACTAATGTTAAATTAATCTACTTCCAATTTCAAGGTGCCCTTTCATTTCAAAATAAAGATCTAAGTAGAAAGTGCCATGTGTATTAATAAGGCTTTTTAATTAAAATTGTTTTCAATTTTAG
Seq C2 exon
AAACAATACAAGCTCGACTGGCAGGAAATGATAAAGAAGGGCTATGACCTCACACCTGAAGCCATTTCAGTGAAAGCTGCCAAAGCTTCAAGGGACATTGCAAGCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTTATACTCAGGCTTGGGAGA
R:
TCGCTTGCAATGTCCCTTGAA
Band lengths:
210-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]