BtaINT0078174 @ 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
chr1:145113472-145114687:-
Coord C1 exon
chr1:145114446-145114687
Coord A exon
chr1:145113628-145114445
Coord C2 exon
chr1:145113472-145113627
Length
818 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCCCACCGTCTCTTTGTCAGGAG
3' ss Score
6.43
Exon sequences
Seq C1 exon
GTTTCGGGTCCTTCGTGGACAAGACGGTGCTCCCCTTCGTCAACACGCACCCCGAGAAGCTGCGGAACCCCTGCCCCAACAAGGAGAAGGAGTGCCAGCCCCCGTTCGCCTTCAGGCACGTGTTGAAGCTCACTGACAACTCCAAACAGTTCGAGACAGAAGTCGGGAAGCAGCTGATCTCGGGGAACCTGGACGCCCCTGAGGGTGGGCTGGACGCCATGATGCAGGTGGCCGCGTGCCCG
Seq A exon
GTGAGGCTCTGTCCTGAGCAAACCTTCTGAAGCCCAAATAAGAGGAAATGACCCTGGAAAGCAAGACCCCTTTGCCGCCCGATCCTGGTAGGCCCCCTACTTCCAGAGCCCCTCAGAGAATAAGGTCATCCTGGCCAGGCTCGCCCACAGTTATGTGGTTTCAGTGTCAGTGCCGGCCACTCCCCGGCCACTGCTGACCCCTCCCACGTGGTCCTGTGCTGCGCTGTATCTGTGACGTCAGTGTTACAGCGCGTCGATCCTGTTTAGCCACGCAGTCCTGTCGCCTTCACAGATGGGATCCCAGCCCTCCAGGTGCTCTGGTCCCTGGGCACACCGCCCTGCCTCATGGACCCAGACTTTCACGTCTGTGTGATTATCATGGTTCATGACGCGTGTTGCTGACGTGCCCGCCTCCATCACCCCCTCACCCCAGTGCCCATGGCCGCTTTCCTGCGTTGGCAGTGCTTTTCCACTGAGATAAACATTTCTAAGTATTTTTTCTTCTGAGCTGACTGGGCATGGAGGATGCAGTGTTCAGATGTGCATTCCTATCCCCTCGGCGTCCCACACCCGCCCAGGCATCGGGGAGGCTGTCACCCTGCAGACACTTCTCGGGTTCCCCTGAGCGCTGGAATCTGCAGCAGACACAGGACCCTGAGTCGAGCAGCTGAGGCCTTCTGTGCTCCCCGTGCTCCCTAGAAAACCCAGGTGTTGGGGGCACACAAGGCCCCCATAGCAAGCTCAGCCTTGGCTCCTGCAGTCTGTGGGGGCCCCACTGGGGAAACCGAGGCAGGTCATCCCCACCGTCTCTTTGTCAG
Seq C2 exon
GAGGAAATCGGCTGGCGCAATGTCACCAGGCTGCTGGTGTTCGCCACGGACGATGGGTTCCACTTTGCGGGCGATGGAAAGCTGGGTGCCATCCTCACCCCCAATGACGGCCGCTGCCACCTGGAAGACAACCTGTACAAAAGCAGCAACGAATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(19.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.3=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:
GTGCTCCCCTTCGTCAACAC
R:
GGTTGTCTTCCAGGTGGCAG
Band lengths:
349-1167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development