BtaINT0078177 @ 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
chr1:145109780-145110715:-
Coord C1 exon
chr1:145110626-145110715
Coord A exon
chr1:145109921-145110625
Coord C2 exon
chr1:145109780-145109920
Length
705 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
GCACCACTGTCTCCCCACAGAAA
3' ss Score
10.92
Exon sequences
Seq C1 exon
AAGCTGACAGAGATCATCCCCAAGTCTGCAGTCGGGGAGCTGTCTGAAGATTCCAGGAACGTGGTGGAGCTTATCAAGAATGCCTACAAT
Seq A exon
GTGAGTCCCCCGGGCAGTCAGCGAAGATGGGGTCCCCACCGCAGGTCAACAGGAGGGTGATCTGATGCGGAGAGCCTCGGCCTTGTCTGGGCCACCCTCGGGCGCCTCCACTGGGGAGCAATGTCCTCCCTGGTTAATGGCGCGGTAGGTGCCACCCCAGGCCCTCCTGCACTTGGCTGGAGCATGAGCGTCAAGCCCTCTTACAGCCGCAGGGCCTGAGGGCCTCACGGGCTCAGCTTGCTGGGCACACCAGGAAGCGCTGGCGGCACTGGGTGAATTCGGAGCCCTGTGGGGGAGCTCCATCTGCTGCTCCTGCCCTGTTGGAGCCCTAAGCCCCAGCAGGCCCTCCCAAACTCCAGATGCTGTCTGGGAGGGGCTGTCTCACCTCTCTGTCTACCTTTATGTCTCTCTGTTTTTCTCTCTCTGTGTCTGTCTCTCTCATTCACTTAAACAGTTTTTCCAGCTCCTGCCCTGTGCCAGGCACTGGGGTTTCAGTGGTGAGTGGACAGTTGAGCCCCTCTTCTCATGGGGCTGGGGCCTGTCTCCACGTCCGTACCCTCCACTGGCCTGTCTTGAGGGGCGTGACGTGGGTGACCTGGCACCCACAGAGCTCTCCATGGATGTGTGGTGGGTGGCGGGGGAGGTGAGAGGCATGCCAGCCATGGCCTGGAAGATGAGTCTGATGGCACCACTGTCTCCCCACAG
Seq C2 exon
AAACTGTCCTCCAGAGTCTTCCTGGATCACAGCACCCTCCCTGACACCCTGAAAGTCACCTACGACTCCTTCTGCAGTAACGGGAAATCGCAGGTGGACCAGCCCAGAGGGGACTGCGACGGCGTCCAGATCAACGTCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:9
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=FE(7.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(11.1=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:
AAGCTGACAGAGATCATCCCCA
R:
GGGACGTTGATCTGGACGC
Band lengths:
230-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development