GgaINT0045914 @ galGal4
Intron Retention
Gene
ENSGALG00000007511 | ITGB2
Description
integrin beta-2 precursor [Source:RefSeq peptide;Acc:NP_990582]
Coordinates
chr7:7176272-7176845:-
Coord C1 exon
chr7:7176640-7176845
Coord A exon
chr7:7176439-7176639
Coord C2 exon
chr7:7176272-7176438
Length
201 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
GATCTGGTTTTGATCCACAGAGT
3' ss Score
7.18
Exon sequences
Seq C1 exon
TTCCTGCGTGGAGTGCAAGTCATTCAATAGTGGGCCACTGGCAAAGAACTGCTCTGTGGCCTGCACCAGCATCCAGCTGGCTGATGAGCCACGGGCAGGGAGTCGGCAGTGCAAGGAGAAGGACTCTGAGAACTGCTGGATCTCTTTCTATATGGCCCAGGATGATGGAGAGGAGATGTACACCGTCACTGTTGACCCTAAGAAAG
Seq A exon
GTACTAGACTGGTCTAGTATTAAATGTGGAGGGTGGTGGCCCTGCCTGTGGCGGGGAGGTTGGAGCTTGGTGATCTCTGAGGTCCCTTCCAACCCAAGCCATTCTGTGGTTCTATGATTCCATGAAACCCACTCATCCTGCCCCTGCCCCAGCAGCTCTCCTGGGGGCTGCAGATGTACAGGATCTGGTTTTGATCCACAG
Seq C2 exon
AGTGCCCAGAGCCTCCCAACATCGCGCTGATCGTAGGCAGCACCATTGCCGGTGTGGCTCTCATTGGCCTGCTGCTCCTGCTGACCTGGCGGCTCTTGACAGAGATCTTTGACCGCCGAGAATACCGCAGGTTTGAGAAGGAGAAATCCAAGGCCAAGTGGAACGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007511:ENSGALT00000012144:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079657=Integrin_B_tail=FE(86.2=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(7.5=10.7),PF087256=Integrin_b_cyt=PU(53.2=44.6)
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:
CCACTGGCAAAGAACTGCTCT
R:
TCTCGGCGGTCAAAGATCTCT
Band lengths:
293-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]