GgaINT0045913 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7176640-7177146:-
Coord C1 exon
chr7:7176927-7177146
Coord A exon
chr7:7176846-7176926
Coord C2 exon
chr7:7176640-7176845
Length
81 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
TGCAGCTGGCTGTGTTACAGTTC
3' ss Score
4.88
Exon sequences
Seq C1 exon
AGCGTGGACGATGCGACTGTGGTGAGTGCAAGTGCACACCCAAGTACGAGGGCAGTGCCTGCCAATGCAAGAAGTCGACTGATGGCTGTAGGAACAGCCGGCAAAATGAATGCAGCCTGCGTGGCTCCTGCCACTGCAACCGCTGCCAGTGCCGAGGGGGCTACCAGCCCCCCTTCTGCGAGGAGTGTCCTGGCTGCCCCTCACCCTGTGGCAGGCACAT
Seq A exon
GTGAGTGATGGAGCTGAGTGGTGGGGTGGGCACAGGGGTTGCTGCTGCTGCAGAGACAATTTGCAGCTGGCTGTGTTACAG
Seq C2 exon
TTCCTGCGTGGAGTGCAAGTCATTCAATAGTGGGCCACTGGCAAAGAACTGCTCTGTGGCCTGCACCAGCATCCAGCTGGCTGATGAGCCACGGGCAGGGAGTCGGCAGTGCAAGGAGAAGGACTCTGAGAACTGCTGGATCTCTTTCTATATGGCCCAGGATGATGGAGAGGAGATGTACACCGTCACTGTTGACCCTAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:13
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=0.043
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.0=5.4)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(86.2=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:
AACAGCCGGCAAAATGAATGC
R:
AGAGCAGTTCTTTGCCAGTGG
Band lengths:
183-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]