BtaINT0078176 @ 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
chr1:145110626-145112523:-
Coord C1 exon
chr1:145112428-145112523
Coord A exon
chr1:145110716-145112427
Coord C2 exon
chr1:145110626-145110715
Length
1712 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CCTGTGTTCTGCCCTGACAGAAG
3' ss Score
8.35
Exon sequences
Seq C1 exon
GACTACCCATCGGTGGGCCAGCTGGCACACAAACTGGCAGAAAGCAACATCCAGCCCATCTTTGCAGTAACCAAGAAGATGGTGAAAACGTACGAG
Seq A exon
GTAAGTGGGCTTGAGGCAGGACAAGGTGTTGCAGCTCAAGAGTGACAAAATCTGGGGTGATCAGACTGAGTGCTGCTTCTGCACTGGGTGTGCTGGCCAAGGCCATGTGGGCGGCCCCAGACAGTGAGCACTGTGGAGGGAGGAGCTGACAGGTCCCTGTGGCTCAGTGATCGTGGTTTTGCTACAACATAGCAAACCCTTTGAGTCTGCAGGTCCCATTCTTCACATCAGGAAAAGTTCCTTGTTTTGTGTCCAAGTACATTTGCACATCAGCACTTCTCCCCTCTGCCCGTCACTGGAGGGCTGTTTTACTTGCTGTCTTGTGTTTTCGCTGCTGGGCTCAGCGTGGCGGCCTCTGGCTGTGATGGGCTGGGGGCGCCTCCTGGCCCCTCTCCTCCTCTAAGTCCCAGGCTCCTTCCTCTTGCTTGTGACCTGCTGTGCCTGTGCGGGACACTTGCAGGCCCAACGGTGGGACCAGCCACACCCGCCGTCAGCATTCGGGGCCCCACCTCGGGCACAGGATGCAGGGGGCATCCAGGGAGGAGGGACAAGTGGCCAGGGTGGGTGCAGTGGCAAGGGGGTGCAGCTGAGAGACCACTGCCCCACAAGTTGCCTGAGCACCGGCAGGTCAGGACCTCCAGTCACCACGTCCCCAACCGAATTACCGGATGCGACAGTCTCTCCTCACCGAGTGGCAGCATGGGTCCCAGCACACTCGTGTCCCAGAAGGCAGTGTGGTGAGAGGGCAGGAGCTGGAGATGGAATACGTGGACCCCAGCAAGGGCGAGGCCCCGGGCAGTCACAGGCCTCGCTGAGTCTCAGCTTCCTGACCCCCATTCCTGGAGCTCCTGGGGGGTTCTAGGAGGCCCAGGGTCTGTGTGGACAGTTTACGCAGGACCCTCCTCAGTACATGTTTCTGCTCTGAGTGGAGAGCAGGTGGCTTGGAGGACTTCCCGAGCCCCAGCGGGGTCCTGAGCTAGGAGCTAGGAGCATCACCTGCTCGGTGATGGAGGCCCAAGGTGGGTGGCCAGGTTGTGATGATCCTCGTAAGCCACAAATGGAGGGGACTGGACTCCATTCAAGGGCATCACAGCAGGGTTGGGGGCAGGGACATGGCCCAGCCCTCGGCTCTGCAAGATAAACTGATGGTGTAATTTCCTGTGAAAGATAAGCTAAGCGGGAGAGAGGCGGCGGCAGAGGGCACAGATGGTCCTGGAGGCTGGCCCCAGGCTTGCCTGCATGACCCAGTGCTCCGGCCTGCCTACGAAGAGGTGTACCTGGACTGGATGTGGTCCTGCCTGCCAGAGTCAACTGGCACGCTGTTGTTTAACGCAGCCATTGTTGAAATTATGTCAGCTCATTCACACGCTCGGTACACGTTGCTTCCTGACTTCATGCCACATTTTACGATGACCTTGATTTGTTTGTGCCTGTCACATCTGCGAGGTGGGGCGGGCCCCTAGCTGTGGCACGTCTTCCCGGCTCTGCTTTCAGTGACCAGCTTGAAATAACCATGGGGAAGTAGTTTTACCAAGCAAATGTCTGCCCACACAACACTGACCATGCACACAGTAAGAAGTCAAGTGGGGGGTTGTCTGGGCCATCTCACCAGCACGAAGGAAACCCTCAGGGGTGTTACAGAACTGGGTGGACCCTGAGGAGTCTTCAGCCCCATGGTTCTGGCCACGGCTACCTGTGTTCTGCCCTGACAG
Seq C2 exon
AAGCTGACAGAGATCATCCCCAAGTCTGCAGTCGGGGAGCTGTCTGAAGATTCCAGGAACGTGGTGGAGCTTATCAAGAATGCCTACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017060:ENSBTAT00000022687:8
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(7.5=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.0=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development