BtaINT0043644 @ 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
chr16:5289750-5291478:+
Coord C1 exon
chr16:5289750-5289935
Coord A exon
chr16:5289936-5291289
Coord C2 exon
chr16:5291290-5291478
Length
1354 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TTAGATTCCTTTAATTTCAGAGG
3' ss Score
4.7
Exon sequences
Seq C1 exon
CTTTCTTTGGCTGTCAACGTCCACTTACAATCTCCCATGGAAATCATACTGGTGGAGACATAACTCGATTTTCTCCTGGAATGTCAATCCTGTACAGCTGCAACCAAGGCTATCTGCTTGTGGGAGAGGCACTCCTTCTTTGCACACATGAAGGAACCTGGAACCAACCTGCTCCATATTGTAAAG
Seq A exon
GTGTGTTCTCTATTTGTTTTCTTATTTTTTAAATAAAATTTGTCCCAAGTAGATATTTTCAGTTAAGTACTTTCAACTTGCTTCTAAGTCACTTCAGTTGTGCCCGACTCTGTGAGACCCCATAGATGGCAGCTTACCAGGCTCCGCCGTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCGCTCAGTTGTGTCTGACTCTTAGTGACCCCATGGACTGCAGCCTACCAGGCTCCTCTGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTCCTAAGTACTTTCAACTTAAAATAGCCAAATAGATGCATTGATTGGATCATTTAATTAATGTATTTAATCCAATTAAATATATTTAATTGGATTAATAGATGAAGTAATCTAAATATTGCAAAATAAAGAAAATGACTGAAGGCCTTAGTCTATATGAGCTATCATATATGTAGTCACTTAAATATGGAAAGATGAAGTCTTTATGTAGATTAAACAACTAATACAGATCGAATGTGCACTGTGGTTAGTTATGATAAGTGTACATTTGACAAAATACTCCTAAAAATACTTTTTTGAGCATATTTCCCTGTAAGTGGTGGTAGAATTATGGGTATACTTATAAAAGTTTTTCAGAATGTCATTTTTACTACCATAAATAGTGCATATGAAATATGAGTGGTGAGTTACTACTAAATATTAGTTGAGCACTTAGGGCACACAGCACTTTGCATGCCTTCTGTCATTTAATCCTCATGAGAACCGTATGAGATTGGTGTCATTATTCCTGTATTATCGATGAGGTCCTCGAAGAATGGAGAGATTTATAACTTATACAGAGTCAAACAACTTGAAAGCCCTAGAGTTAGTTCAAATCCAAAATCTCACACTATTGGCCACTACACTGCAAAGACTAAAGAAGAAAAGAGGAAGCATTCACATCTAAGAAGAGTTAGAGAACAAGAGTAGAAGTTGAGGAAATAATTCAGAAGTCTTAACATTACTCATTCATCCTGCATCATTTCTCTAAGAAGCCACAAAAATTATTCATTATTGGTTTAGAGACTAAAGCACAAGAAAGAAAGTTATTTGATAACCAGGGTGTTATTGAGGTAGATGGCTGACACTAAAAGTCTATGCCTAGGATATAATTTTGTGTTATTTCAGTGAAGTTTTACTAACTGAGAATAGAATAAATTGGTTTCATAAATCTTTCCATTAAGGGCAGTATCTACATTCTTAGTTAAAGGTCAAAATATGACACAGATTCAATTAGATTCCTTTAATTTCAG
Seq C2 exon
AGGTGAACTGTAGCTTCCCAGAACATATAAATGGAATCCAGAATGGGCTGGAGCCTGGAAGAATGTATCAATATGGAGCTGTTGTCACTTTAATGTGTGAAGACGGGTATACCCTAGAAGGCAGTCCCCAGAGCCAGTGTCAGGAAGATCACCGATGGAACCCTCCCTTGGCTGTTTGCAAATCACCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038496:ENSBTAT00000063039:24
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=0.016
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=89.1)
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:
TCTTTGGCTGTCAACGTCCAC
R:
GGAGGGTTCCATCGGTGATCT
Band lengths:
349-1703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development