GgaINT0127620 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4726449-4726821:-
Coord C1 exon
chr18:4726699-4726821
Coord A exon
chr18:4726556-4726698
Coord C2 exon
chr18:4726449-4726555
Length
143 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGTGCTGCTGTTGCTTGCAGAGT
3' ss Score
7.04
Exon sequences
Seq C1 exon
CAGAGGAGGCCAATGAGTACTGCTCCTTCCAGGATGAGGAGGATGACTGCACCTACCACTACATGTTGGAGGGAGACCCCAGTGTTCTCCCCAATGCCACTGTCCAGGTGCAGAAGAAGAAAG
Seq A exon
GTGAGCAGAGAGGTGGCAGAGCTCTCCCTGGGCAGCACTGCTCACTGTGAGCGTTGGGAGAGATGCTCCCAGGCTGAACCTGGCTACTCCATCCTCACCTCCCCCCTGGGCTGATGCACTGCTGGTGCTGCTGTTGCTTGCAG
Seq C2 exon
AGTGCCCTCCTGGCAGCTTCCTCTGGCTCATCCCTCTGCTCATTTTCCTCATCCTGCTCCTGGGGCTGCTGCTGCTGCTGTGCTGGAGGTACTGTGCCTGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:16
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:
PF079657=Integrin_B_tail=FE(48.2=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(7.1=16.7)
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:
CAGAGGAGGCCAATGAGTACTG
R:
CAGCAGGCACAGTACCTCCAG
Band lengths:
226-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]