BtaINT0078165 @ 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
chr1:145107804-145108317:-
Coord C1 exon
chr1:145108130-145108317
Coord A exon
chr1:145108049-145108129
Coord C2 exon
chr1:145107804-145108048
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGACCCCGCATTCCCGCAGGTG
3' ss Score
9.76
Exon sequences
Seq C1 exon
ATCACCTTCCAGGTGAAGGTCACAGCCACCGAGTGCATCCAGCAGCAGTCCTTCACCATCCGGGCGCTGGGCTTCACGGACACGGTGACCGTGCGGGTCCTCCCCCAGTGCGAGTGCCAATGCCGGGACGCCAGCAGGGACGGCAGCATCTGCGGCGGCAGAGGCTCGATGGAGTGCGGCGTCTGCAG
Seq A exon
GTGAGGCCTCCGCCCCGCCCCCGGCGCAGGCGCCCGGAAGCAGGGTGCGCTCCGGAGGGCTCTGACCCCGCATTCCCGCAG
Seq C2 exon
GTGTGACGCCGGCTACATCGGGAAGAACTGCGAGTGCCAGACGCAGGGCCGGAGCAGCCAGGAGCTGGAGGGCAGCTGCCGCAAGGACAACAGCTCCATCATCTGCTCGGGGCTGGGGGACTGCATCTGCGGGCAGTGCGTGTGCCACACGAGCGACGTGCCCAACAAGAAGATCTACGGCCAGTTCTGCGAGTGCGACAACGTCAACTGCGAACGCTACGACGGCCAAGTCTGCGGGGGCGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:11
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=60.3),PF126612=hEGF=PU(15.4=3.2)
A:
NA
C2:
PF126612=hEGF=PD(76.9=12.0)
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:
CAGCAGCAGTCCTTCACCATC
R:
GCAGTTCTTCCCGATGTAGCC
Band lengths:
180-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development