GgaINT0127634 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4700853-4701367:-
Coord C1 exon
chr18:4701185-4701367
Coord A exon
chr18:4700985-4701184
Coord C2 exon
chr18:4700853-4700984
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
TCCCCATTGGCCCCATGAAGAAGGTGCTGGTTGAAGACCCAAAGAAGCGCATGGTGCTGATAGAAAACCTGCGGGAGTCCCAGCCCTACCGCTACATGGTGAAAGCCAGGAATGGTGCTGGCTGGGGACCTGAGAGAGAAGCCACCATCAACCTCGCTACGCAGCCCAAGCGTCCCATGTCTA
Seq A exon
GTGAGTCGCTGCCCTGTCTGGATGGGGGGCACTGGAGGTGGGAGCAGTGCTGGGGGGCTTCCTTCATCACCCAGCTGCTCCTCCTCACCCTGCCCTCTCCACCGTGCTGTTCACCCTGGTGAAGGCTGAAGGCCTGAGCATGGTGGATCCAGTGTGGTTTTGAGCTGCATGCCTAACGGCACTCCCCACCTCCCCTCCAG
Seq C2 exon
TCCCCATCATTCCCGATGTCCCCATCATTGATGCTGAAGGAGGTGAGGACTACGACAGCTACCTGATGTACAGCACAGACGTGCTTCGCACTCCAGCTGGCAGCAAACGTCCCAGCGTCTCTGATGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.304
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=72.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]