GgaINT0127619 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4707789-4708139:-
Coord C1 exon
chr18:4708013-4708139
Coord A exon
chr18:4707909-4708012
Coord C2 exon
chr18:4707789-4707908
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
TATTCCAAATCTGTTTGCAGAGG
3' ss Score
6.29
Exon sequences
Seq C1 exon
GGCTTCCAGGCCGTGTGCGAGAGCATCAGGGACTGTGTGCAGTGCCAGGCCTGGGGAACAGGCAACAGGAAAGGGAACTGCAGCATGTGCCACCTCCACGTGCAGATGGTGGAGGAGCTGAAGAAAG
Seq A exon
GTACCGAGATGCAGAGACGTGGGATCTGCCTGCCCTATGCATGGCCTGGGGGTGCTAGTCCTGGTGACCACAGCCTGATGATGGTATTCCAAATCTGTTTGCAG
Seq C2 exon
AGGAGGCCAATGAGTACTGCTCCTTCCAGGATGAGGAGGATGACTGCACCTACCACTACATGTTGGAGGGAGACCCCAGTGTTCTCCCCAATGCCACTGTCCAGGTGCAGAAGAAGAAAG
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=PU(44.0=86.0)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(47.6=100)
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:
CTTCCAGGCCGTGTGCGA
R:
TCTTCTTCTGCACCTGGACAGT
Band lengths:
242-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]