BtaINT0078167 @ 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
chr1:145107022-145107627:-
Coord C1 exon
chr1:145107408-145107627
Coord A exon
chr1:145107225-145107407
Coord C2 exon
chr1:145107022-145107224
Length
183 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
CACGCCCCGGCTCCCCGCAGCCC
3' ss Score
8.23
Exon sequences
Seq C1 exon
AGAGGGGGCTCTGCTTCTGCGGCACCTGCAGGTGCGACGAGCAGTATGAGGGTTCGGCATGCCAGTGCCTCAAGTCCACTCAGGGCTGCCTCAACTTGGACGGCGTCGAGTGCAGCGGCCGCGGCCGATGCCGCTGCAATGTGTGCCAGTGCGACCCCGGCTACCAGCCGCCCCTGTGCAGCGAGTGCCCGGGCTGCCCCGTGCCCTGTGCGGGCTTCGC
Seq A exon
GTGAGTGTCCGCCGCCCCGCCGGGCTCGCACCTCCTTGCGGATGGGGAGAACCACTGCCCGGCCCCGGGCGCGGGGCGGGGGCGCGGGCGGCCCGCCCTCCCCAGAAGGCCCTGCACAGACCCGCCGCTCCCGGCGGCCACTCCTCCCAACCCCGCCCGCGCTCACGCCCCGGCTCCCCGCAG
Seq C2 exon
CCCCTGCACAGAGTGCCTGAAGTTCGACAAGGGCCCCTTCGCCAAGAACTGCAGCGCAGCGTGCGGGCAGACGAAGCTGCTGTCCAGCCCGGTGCCCGGCCGCAAGTGCAAGGAGCGCGACTCCGAGGGCTGCTGGATGACCTACACCCTGGTGCAGCGCGACGGGCGGGACAGATACGACGTGCACGTGGACGACATGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:13
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=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.1=5.4)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(86.1=100)
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:
CAGTGCCTCAAGTCCACTCAG
R:
CTGGACAGCAGCTTCGTCTG
Band lengths:
245-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development