BtaINT0076628 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009987 | INTB3
Description
Bos taurus integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61) (ITGB3), mRNA. [Source:RefSeq mRNA;Acc:NM_001206490]
Coordinates
chr19:47006664-47008772:+
Coord C1 exon
chr19:47006664-47006798
Coord A exon
chr19:47006799-47008342
Coord C2 exon
chr19:47008343-47008772
Length
1544 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CGATCTTACTTTCCATCCAGGTG
3' ss Score
10.19
Exon sequences
Seq C1 exon
AAAATCCGCTCTAAAGTAGAGCTGGAAGTGCGTGACCTCCCCGAAGAGCTGTCCTTATCCTTCAACGCCACATGTCTCAACAACGAAGTCATCCCAGGCCTGAAGTCTTGCGTTGGACTCAAGATTGGAGACACG
Seq A exon
GTGAGGTGGGCTGGACAGGGGCTGATGCTGCAGCTCTCACCTTGGCCTGTGCTCCGGAACCTCTGTGGGCACCCACCCCTTCCTTCCCTGTACTTTCTTCCTGAACGTCCTTACAAGTCAGATGGAACAGAGCTGCCAGCCTTTGCCTCCAAGACTTCTGTTACCTAAACTTTCTCCGTTAAGTAACTTCCCCATCAGGATTTTTTAAAAACTTGCATTTAGGTGACTGTTTATGCACAGCCGATTGCAGATAATATTTCTTGCCTTCAGCCCCTTACTGGTCTCCATCCTCCTCTAAAGTAATGCCTTTCTTTGCTTCACAACGTAACTGGAAATGTCATCTGTAAATATTTATTGAGCCCTGACTTCGTGCCAGGCATTGTCCTAGCTGCTGAAGATTTGGCAGCAAACAGAACAGGTGAAAATACCCAGCATGGAATTTCAGAATGCAAACGTTCATTCTGCCTCCTTAGTCCCTCTGCGGCTTTCCTTCCCTAGTTGTTCTCCTCGGCTTCTGCCTTGGGGGAGAGGGATGGTGAAAGGGGTGGGAAGAAAAGGGGCTTATCTATAGTTATGTCATCCATGTCTGTATCATTTAATGTCTATACCCATCCCTCTTTCTGTCTATACTCTAGGCACGGGTGCACACACCCTAGTAAGAAACGTTGGCCTGAAACATGTTTGATTGCACAAGTGATGAAATGTCATATGGAAATTGAACAGGGACCTCCCTGGTGGTCTAGTGGTTATCACTCTGTGCTTCCTCTGCAGGGCTCACGGTTTCGATCCCTGGTTGGGGAATTAAGATCTTGCATGCTGCAAGGCGGGACCAAAATAAATAAATAAATAAAAATAAACTATAAAGAAATTGAACAGTAGGCCTTGAGCCTGCGGTTGTCGCTACGTGACACTGTATGGGTTAGAGTTACCATTGTTGTTGTTTAGTCGCTGTCATGTCTGATTCTTTTGTGACCCCATTGACTGACTGTAGCCCCACCAGACTCCTCTGTCCATGGGATTTCCCAGGCAAGAATACTGAAGTGGGTTGCCATTTCCTTCTCCAGGGGATCTTCTCCACCCAGGGACTGAACCCATGTCTCTTGCATCTCCTATATTGGCAGGCAGATTCTTTACCACTGAGCCACCTGGGAAGCCCCAGGGTTACCATACAATGCCACAAAATAGTGCTTTGTGTACCTTGATATTATGTAATCAGCTAGCTTAGTTGGCCAAGGCAGAGTGTTTATAAGATCATAGGTTCTGCTCTGCTTGAACTGGTTTATTTATTTTTTTAAAAAAAGCTATCTCATGATTATAAGCCATGTCTACACCCAGCCAGCAGGTCACAATGCACAACTGTCCCCAGGCTCTTGCTTTGGCTTTGCAGACCCTGGTAGCGGCAAAGCTGAGGAACTTTGGCTTGCGGGGAACAGGACACCCAGTTTGAGCATTCCTGGGCAGGGCAGGGAACAGCTTCTTTCCCTCCAGGGCTGGAGTGTCAACAGGGTCCCCTGTGTCTGAACACGATCTTACTTTCCATCCAG
Seq C2 exon
GTGAGCTTCAGCATTGAGGCCAAAGTGCGTGGCTGTCCCCAGAAGAAGGAGAAGTCCTTCACCATCAAGCCTGTGGGCTTCAAAGACAGCCTCACCGTGCAGGTTACTTTCGACTGTGACTGTGCCTGCCAGGCCGAGGCTGAGCCTTTTAGCCACCGCTGCAACAATGGCAATGGGACCTTTGAGTGTGGGGTGTGCCGCTGTGGGCCCGGCTGGCTGGGGTCCCAGTGCGAGTGCTCAGAAGAGGACTACCGCCCCTCGCAGCAGGACGAGTGCAGCCCCCGGGAGGGCCAGCCCATCTGTAGCCAGCGGGGCGAGTGTCTCTGTGGCCAGTGCGTCTGCCACAGCAGTGACTTTGGCAAGATCACGGGCAAGTACTGTGAATGTGATGACTTCTCCTGTGTCCGCTACAAGGGGGAGATGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009987:ENSBTAT00000013173:9
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(10.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.4=27.8),PF079748=EGF_2=WD(100=25.0),PF079748=EGF_2=PU(32.3=6.9)
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:
CTCCCCGAAGAGCTGTCCTTA
R:
CTCTTCTGAGCACTCGCACTG
Band lengths:
345-1889
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development