GgaINT0049717 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36893598-36893962:-
Coord C1 exon
chr7:36893858-36893962
Coord A exon
chr7:36893706-36893857
Coord C2 exon
chr7:36893598-36893705
Length
152 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCTTTTCTGTTTTGAATTAGAAA
3' ss Score
8.03
Exon sequences
Seq C1 exon
AGGCTCTACACTGATAAATGGAACAAAGAGAAGACCAGCATTCATGTTATGCCAGATACTCCAGAAATTCTGCAGTCTAGAGTGAATCAGATCACAATGAGTAAT
Seq A exon
GTAAGTTGCTGTGTTCAGTGAGGACATTCAGTGTCTGTTGTATAGATCAAAAATTGGTGTAATTCTTAAGTCTTTTTTGAAAATATTTAAGGGTACTTCAGTACTTCCGCCTTCATAATAGAGTACCTGTTCTCTTTTCTGTTTTGAATTAG
Seq C2 exon
AAACTATACAAAGCTGGATGGGAGGAAGACAAGAAGAAGGGTTATGACATGCGGCCAGATGCTATTCCAATAAAAGCAGCCAAAACTTCCCAAGACATTGCAAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.229 A=NA C2=0.167
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:
AGGCTCTACACTGATAAATGGAAC
R:
TCACTTGCAATGTCTTGGGAAGT
Band lengths:
212-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]