BtaINT0078166 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017060 | ITGB2
Description
Bos taurus integrin, beta 2 (complement component 3 receptor 3 and 4 subunit) (ITGB2), mRNA. [Source:RefSeq mRNA;Acc:NM_175781]
Coordinates
chr1:145107408-145108048:-
Coord C1 exon
chr1:145107804-145108048
Coord A exon
chr1:145107628-145107803
Coord C2 exon
chr1:145107408-145107627
Length
176 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GCGGCCGCGCTGTCTTCCAGAGA
3' ss Score
5.71
Exon sequences
Seq C1 exon
GTGTGACGCCGGCTACATCGGGAAGAACTGCGAGTGCCAGACGCAGGGCCGGAGCAGCCAGGAGCTGGAGGGCAGCTGCCGCAAGGACAACAGCTCCATCATCTGCTCGGGGCTGGGGGACTGCATCTGCGGGCAGTGCGTGTGCCACACGAGCGACGTGCCCAACAAGAAGATCTACGGCCAGTTCTGCGAGTGCGACAACGTCAACTGCGAACGCTACGACGGCCAAGTCTGCGGGGGCGAAA
Seq A exon
GTGAGTGCTGGGGGGCCGCGGGACAGAGCCTCGGCCGCATGGGGCCGGGGGCTTTGGCCAGGGCGGGGCTCGGGAGGGACTGAGTCCGAGGCGGCTTTGTCTTCCAGGGCGGGGATGGGGTCCGGAGCGGGCCGGGGCTGGGGCGGGACTGAGTCCGCGGCCGCGCTGTCTTCCAG
Seq C2 exon
AGAGGGGGCTCTGCTTCTGCGGCACCTGCAGGTGCGACGAGCAGTATGAGGGTTCGGCATGCCAGTGCCTCAAGTCCACTCAGGGCTGCCTCAACTTGGACGGCGTCGAGTGCAGCGGCCGCGGCCGATGCCGCTGCAATGTGTGCCAGTGCGACCCCGGCTACCAGCCGCCCCTGTGCAGCGAGTGCCCGGGCTGCCCCGTGCCCTGTGCGGGCTTCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:12
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:
PF126612=hEGF=PD(76.9=12.0)
A:
NA
C2:
PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.1=5.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGGACAACAGCTCCATCA
R:
CTGAGTGGACTTGAGGCACTG
Band lengths:
248-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development