BtaINT0043643 @ 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
chr16:5288323-5289935:+
Coord C1 exon
chr16:5288323-5288715
Coord A exon
chr16:5288716-5289749
Coord C2 exon
chr16:5289750-5289935
Length
1034 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CTTTCATATTGATGTCTAAGCTT
3' ss Score
3.23
Exon sequences
Seq C1 exon
TTATCCACTGTCAGGACCCACCGGTGATTAACAATGGGAGGTACAGAGGTGTGCTGCCAGGAGGCTTTCCATATGGAAGCGAAGTCTCTTATGAATGTGATCAAGGATTTGATCTCCTGGGAGAGAAAAGTATACGGTGCATAAGTGATTCTAAAGGACTTGTATCTTGGAGTGGACGTGCCCCGCAGTGCTTAAAATCTCCTCCTGTGACTCACTGCCCTAACCCAGAAGTCATGCATGGACACAAGCTAAATAAAACCTATTCTTCATATTCCCACAATGACATATTACATATTGCTTGCAATCCCGGCTTCATCATGAATGGCAGTCACTTGATTAGATGCCATACCAACAACAAATGGGTGCCAGGTGTACCAACTTGCATCAAAAAGG
Seq A exon
GTAAGATATTTTAAGGAACAAAATATGGGGTGTTACATAGAATTTTTAAAAAGGGGTTTTGAATGTGCACTTGTCATTTCACCTATAGAAAGGCAAGTTAAAAGCTTAGGTAATCATATTATTTTACAAAACACTTGCTTGTCTTATTTTCTCAGCTCATTTTTTGTTTTCCTTTTTCTTTCCAAGCATGTTGACAAAAGGTACATGAAAGGATAACAGTTAACTTCTAAATTGATAGGATCTTCCAAATTTATTATTTTTATTAGTTTAGAATAGCAAAAATGCACATACCTTTTTCAGCAAATGTTTGGCAGTAACATTGCTTGATAATTTCATATTTAAGGCTGTGCTATCAGCCAGAAAGATATATTTGAGTATTCTGGAGAATGGAACTAGCCTTAAAACCCACTTAATTGTCTTGTAATTTTAGTTGTCATTGGTGGTTTTATCCCTGTCAGTGGCTATCTGCAACAGAGAATGCCAACTGGCAACCAAGAACTGAATTCAGAACTGTTTATTTTTGTCTAGCACAGCAGTCTTATTTTAAGTGAGACCCATCCCTACTGCCCAAGATAAACTGTGAATCTGTGATACAGTGAGGATCCCCTTTGCTTTCCTGCAAGGTACCAGTAGCTTGAATTAGGCAGTGGCTGCCATTTTTAGAAAGATAGGTGCTCTATAACTTGGCATCACTTCCTGGTGCCTGTAGATATTTGAAGGCGTGACACTTGACTATAGCCTTTCTACCATATAAAGAGAAAACATTACTATTCTTTGATAGATTACAATTGTAGGCTGCAACCACTGATGTTTCATTATCTTACTTTTGACATTTGCTTTCAGATCATATATGGTGTAGGTAGGAAATGCAAATATCTGTCCTATACTGCTTGGTTTGGGTGGAATGAGTATTTTTGGATACTGATCAGTTGGCTTGTTGCCTGCCTTCTTTATGTATTGTTATCAACTACAGAGAGTATTGGCTATGTGTTCCTCTGTACTAAATTAAAAATCCTTTCATATTGATGTCTAAG
Seq C2 exon
CTTTCTTTGGCTGTCAACGTCCACTTACAATCTCCCATGGAAATCATACTGGTGGAGACATAACTCGATTTTCTCCTGGAATGTCAATCCTGTACAGCTGCAACCAAGGCTATCTGCTTGTGGGAGAGGCACTCCTTCTTTGCACACATGAAGGAACCTGGAACCAACCTGCTCCATATTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038496:ENSBTAT00000063039:23
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=0.016
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=46.2),PF0008415=Sushi=WD(100=42.4)
A:
NA
C2:
PF0008415=Sushi=WD(100=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
GCCCTAACCCAGAAGTCATGC
R:
GAGCAGGTTGGTTCCAGGTTC
Band lengths:
351-1385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development