GgaINT0127621 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4707262-4707645:-
Coord C1 exon
chr18:4707539-4707645
Coord A exon
chr18:4707296-4707538
Coord C2 exon
chr18:4707262-4707295
Length
243 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTGGTCATTTCTTTTTTAGGCT
3' ss Score
10.52
Exon sequences
Seq C1 exon
AGTGCCCTCCTGGCAGCTTCCTCTGGCTCATCCCTCTGCTCATTTTCCTCATCCTGCTCCTGGGGCTGCTGCTGCTGCTGTGCTGGAGGTACTGTGCCTGCTGCAAG
Seq A exon
GTGAGTGACACCCAAACCCAGCCCACCTCCACTGTATCTGGGGTATCAGCACTGCCTCTTGACTGACATCCAACACCATTGCTGTGAGTTGCAGTGTGACTCCCCCCACTAAAGGGCTGTCAGGCTATGATCACCTTCCAGAACCCCATCCGTCCCCACTCCAGCACTAAATCCTCCCAGCTGAAGATGGGAGTTTCACCTCTGACTACAGAGTGACTGTGTGTTTGGTCATTTCTTTTTTAG
Seq C2 exon
GCTTGCCTGGCCCTGCTCCCCTGCTGTGCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:18
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=PD(7.1=16.7)
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:
CCTCCTGGCAGCTTCCTCT
R:
CTCGTGCACAGCAGGGGAG
Band lengths:
136-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]