GgaINT0045911 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7177412-7178579:-
Coord C1 exon
chr7:7178395-7178579
Coord A exon
chr7:7177657-7178394
Coord C2 exon
chr7:7177412-7177656
Length
738 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTTCTCTCCCCTCGTGGCAGTTG
3' ss Score
9.14
Exon sequences
Seq C1 exon
GTCACCTTCAAAGTGAAGGTCACAGCAAATGAGTGCATCAAAAGCCAGTCCTTCACCATCCGGCCCCTGGGCTTCACAGACACGCTCACTGTGCACCTGGACAGCATCTGTGACTGTGACTGCAGAGAGCAGCCTGATCCAACTGCCTGCAGTGGAAATGGCAAGGTCGTCTGTGGGATCTGCAG
Seq A exon
GTGAGTGCTGTTCTCCATAAATATTATTTCAAATAATGCTAGAGTTGAGGAGATGCTGTGAGAGAGCTGCCAGGCCAAGCTGAGGGCACTGCATGCTGTGCTTGGTGCCTCCCAGCACCCCAGGGCCTGCAGAACCATCAGTCATGGCCTTGCTCTGATCTTTTGCACCCACTTTCTTTTTTGGAGCAGCAGTTTAAGTTCATGGTAGCAGGGAACATGCTGAGGTCTGTCTTCAGTTGGTAGACTCTCTGCTGCTTTCCTAAGGTCGCACGTGCATCCACTCAGCCATCCATCTGCCTACTTGTTATTCAGCCAACTCTCCACCCATTCAACCATCTGTTTGCCCAAACACCAAGCTTTCTGTAGAAGTCTCTAAAAATCTCACTTCTGCGGTTCATGTACATTTTAAACATAATTATTGCTTCAAGGCCTCTCAGTGAGTGGGAGAGGAAAAGCCTGGGTTTCTTCAGGAAACGCTCAGATCTCCTGGCAAGGGTTTGGAAGTTATAATAATAATTTCCAGGCAATCGTTAGGTGTTGTAAATATAACAAATGTGGAGAGCAGCACTGCTGAGATCTCCCACCAAAGTGCCTCCCAGAGTTCACTCCAGCACGCGATGGTGCAGACACCTGGCGCTTGTTTCCAACAGTGCTATCTGCTTCAGTCAAGGTCTGACCTTGACCCTGTGTGTGCTCTGTGGCTGCTGACCCAGACTTATTTCTCTCCCCTCGTGGCAG
Seq C2 exon
TTGCAATTTGAGCTACACGGGGAAGAACTGTGAGTGTGACACCAAAGGCAAGACCAGCAAAGAGCTGGAGGGCAGCTGCCGGAAGGACAACAGCTCAGTCATCTGCTCAGGGCTGGGGGACTGCGTGTGTGGGCAGTGCGTCTGCCACACCAGTGACGTACCTGGCAAGGAGATCTATGGCACCTTCTGCGACTGTGACAACATGAACTGCGAGTTTCACAACGGCTCACTGTGTGGTGGCGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:11
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:
PF0036213=Integrin_beta=PD(9.1=61.3),PF079748=EGF_2=PU(65.6=33.9)
A:
NA
C2:
PF079748=EGF_2=PD(31.2=12.0),PF079748=EGF_2=WD(100=45.8)
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:
CTTCACAGACACGCTCACTGT
R:
AGTGAGCCGTTGTGAAACTCG
Band lengths:
345-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]