BtaINT0043645 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038496 | CR2
Description
Bos taurus complement component (3d/Epstein Barr virus) receptor 2 (CR2), mRNA. [Source:RefSeq mRNA;Acc:NM_001198991]
Coordinates
chr16:5291290-5292461:+
Coord C1 exon
chr16:5291290-5291478
Coord A exon
chr16:5291479-5292437
Coord C2 exon
chr16:5292438-5292461
Length
959 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
TGATTTTGTATTTTCCTTAGGTT
3' ss Score
10.13
Exon sequences
Seq C1 exon
AGGTGAACTGTAGCTTCCCAGAACATATAAATGGAATCCAGAATGGGCTGGAGCCTGGAAGAATGTATCAATATGGAGCTGTTGTCACTTTAATGTGTGAAGACGGGTATACCCTAGAAGGCAGTCCCCAGAGCCAGTGTCAGGAAGATCACCGATGGAACCCTCCCTTGGCTGTTTGCAAATCACCCA
Seq A exon
GTAAGTGCAAAGAGCTTCTCTGCAGCTTCTACTTGTTTCACTGGAAAGAAGAGACAGAGGGTTATCCAATTTCAGGGACTCCTGGGTTTCAAAGTGACGTAGGTTTGTGATCAGTGGTATAGTAACAGAAGAATTTGAAGTCAGTGGTCTATTGTAGTAAAAGTGAGACTTTCTGAAGATTGGGAAAGTAAAGAAAGAATATAAAGAGAGATGAGCACTGATTTAAAAGGTGCAAAGCTCACAGCCTTATACAGTGGTCCTTTGGTATCTTCAGGGGAATTGGTTCTAGGACCCCCTCAGATACAAAAATCTGCAGATTCTCAAGTCCCTTATGTAAAATGGCATAGTATTTGCATATAATCTGTGCACATCCTCCCATATACTTGAAGTCATTTCTATATTATTTATAATACCCAATGCAATGTAAATGCTATGTAAATAGATGCTGGGCTAACAGCGTGAGCTTTGCTTTTGGGACTTCCTGGAATATTTTACTTTTTCAAATATTTTTTAATTAGTGGTTGGTTGAATCCACAGATACAAAAGACAGACTGTATTTTGAAAGAAGTTGCTCCCGAGACTTCTGCTATTGCTGAATCTTGATTTATAAGTGCTTACTGATATGACAGGGACCTCCAAAAATATGCTAACTAAACTGTTGTAATCGTTGTTTCCATTCTGACCTGAGAAATCCCTGATTATAAAGTTGAGCTTATTATTTTTTTTTTTTTCATGAGTGAACTACCTCACCTTAAAGTGGAAAAAAATTTAAAGGCCAATGAAGTTGTTACATAAAGAATGAAGAAAGATTGGGTATAATTCAGTGTTCTGATACATCTTTTTAAGTAGACTTAAAGAAGAGGGATCTGAGTGTTAATTTCTGGGACATCCATGGTATTTGGAGCTATGTGGAGCCATGCAACTAAACTAATGTTTTCATGATTTTGTATTTTCCTTAG
Seq C2 exon
GTTCACTTGCTCCTCTTATTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038496:ENSBTAT00000063039:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=89.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGAACTGTAGCTTCCCAGA
R:
CAGCAATAAGAGGAGCAAGTGA
Band lengths:
213-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development