GgaINT0127634 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4719763-4720277:-
Coord C1 exon
chr18:4720095-4720277
Coord A exon
chr18:4719895-4720094
Coord C2 exon
chr18:4719763-4719894
Length
200 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
ACTCCCCACCTCCCCTCCAGTCC
3' ss Score
8.54
Exon sequences
Seq C1 exon
TCCCCATTGGCCCCATGAAGAAGGTGCTGGTTGAAGACCCAAAAAAGCGCATGGTGCTGATAGAAAACCTGCGGGAGTCCCAGCCCTACCGCTACATGGTGAAAGCCAGGAATGGTGCTGGCTGGGGACCTGAGAGAGAAGCCACCATCAACCTCGCTACGCAGCCCAAGCGTCCCATGTCTA
Seq A exon
GTGAGTCGCTGCCCTGTCTGGATGGGGGGCACTGGAGGTGGGAGCAGTGCTGGGGGGCTTCCTTCATCACCCAGCTGCTCCTCCTCACCCTGCCCTCTCCACCGTGCTGTTCACCCTGGTGAAGGCTGAAGGCCTGAGCATGGTGGATCCAGTGTGGTTTTGAGCTGCATGCCTAACGGCACTCCCCACCTCCCCTCCAG
Seq C2 exon
TCCCCATCATTCCCGATGTCCCCATCATTGATGCTGAAGGAGGTGAGGACTACGACAGCTACCTGATGTACAGCACAGACGTGCTTCGCACTCCAGCTGGCAGCAAACGTCCCAGCGTCTCTGATGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.177 A=NA C2=0.289
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=72.6)
A:
NA
C2:
NO
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:
CCATTGGCCCCATGAAGAAGG
R:
ATCAGAGACGCTGGGACGTTT
Band lengths:
305-505
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]