BtaINT0043640 @ 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
chr16:5286239-5286577:+
Coord C1 exon
chr16:5286239-5286415
Coord A exon
chr16:5286416-5286489
Coord C2 exon
chr16:5286490-5286577
Length
74 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TTTCAACTTTGCTCCTCTAGAAG
3' ss Score
8.43
Exon sequences
Seq C1 exon
GCTGTCAGCCACCCTCTGGGCTCCACCATGGTCGGCATACAGGTGGAAATAGGGTCCTCTTTGTCTCTGGGATGACTGTAGACTACACCTGTGACCTTGGTTACTTGCTTGTGGGAAACAGATCCATTCATTGTATGCCTTCAGGAAATTGGAGTCCGTCTGTCCCTCGGTGTGAAG
Seq A exon
GTATTTTCAGTTCCTGAGTTGTCTTTCTCTTTTATATCAAGCATATATAAGTAATTTCAACTTTGCTCCTCTAG
Seq C2 exon
AAGCACAATGCCAACCTTTGGAAGAAGATGTTCGAGAACCTCCAGTTGATTCACTCGTGGTACCAGCTAATATATCTTGCCAAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038496:ENSBTAT00000063039:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=95.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGTCGGCATACAGGTGGAA
R:
CCAAAGGTTGGCATTGTGCTT
Band lengths:
171-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development