GgaINT0045912 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7176927-7177656:-
Coord C1 exon
chr7:7177412-7177656
Coord A exon
chr7:7177147-7177411
Coord C2 exon
chr7:7176927-7177146
Length
265 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GAAAACCTTTCCCATCACAGAGC
3' ss Score
6.63
Exon sequences
Seq C1 exon
TTGCAATTTGAGCTACACGGGGAAGAACTGTGAGTGTGACACCAAAGGCAAGACCAGCAAAGAGCTGGAGGGCAGCTGCCGGAAGGACAACAGCTCAGTCATCTGCTCAGGGCTGGGGGACTGCGTGTGTGGGCAGTGCGTCTGCCACACCAGTGACGTACCTGGCAAGGAGATCTATGGCACCTTCTGCGACTGTGACAACATGAACTGCGAGTTTCACAACGGCTCACTGTGTGGTGGCGAGG
Seq A exon
GTGAGCAACTGGATGCCCAGACACACTGGGGGTGGTCTCACTGTCCGAGCAGCATGAGTGCATTTCCATGCTGCCCTCACAAAACCCCTCCTGGAAGGGCAGCCCTAGCTCCAGTGCAGGGCTCCTTCCAAGCAGATGTGGTCAGAGCTGGCAGAGAGTGACCAGTCCTGTTTTTCATCCTCCCTCAACCCCATCGTCCCCACAATCCCTCTGTGGGCAGCCCTGTGCCCCACAGGGCCATGACTGAAAACCTTTCCCATCACAG
Seq C2 exon
AGCGTGGACGATGCGACTGTGGTGAGTGCAAGTGCACACCCAAGTACGAGGGCAGTGCCTGCCAATGCAAGAAGTCGACTGATGGCTGTAGGAACAGCCGGCAAAATGAATGCAGCCTGCGTGGCTCCTGCCACTGCAACCGCTGCCAGTGCCGAGGGGGCTACCAGCCCCCCTTCTGCGAGGAGTGTCCTGGCTGCCCCTCACCCTGTGGCAGGCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:12
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:
PF079748=EGF_2=PD(31.2=12.0),PF079748=EGF_2=WD(100=45.8)
A:
NA
C2:
PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.0=5.4)
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:
GTGAGTGTGACACCAAAGGCA
R:
GCCATCAGTCGACTTCTTGCA
Band lengths:
302-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]