BtaINT0130617 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007307 | SELE
Description
Bos taurus selectin E (SELE), mRNA. [Source:RefSeq mRNA;Acc:NM_174181]
Coordinates
chr16:38187191-38187663:-
Coord C1 exon
chr16:38187478-38187663
Coord A exon
chr16:38187380-38187477
Coord C2 exon
chr16:38187191-38187379
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AACTGGGACATGTGTTGCAGCTG
3' ss Score
4.05
Exon sequences
Seq C1 exon
TGGTTAAGTGTGATGCTTTGTCAAATCTGGACAATGGAGTGGTAAACTGTTCCCCAAACCATGGAAGCCTCCCATGGAACACCACCTGTACGTTTGAGTGTCAGGAAGGATATAAACTCACTGGACCCCAGCACCTACAGTGTACCTCCTCTGGGATTTGGGACAACAAGCAGCCAACATGTAAAG
Seq A exon
GTAAGGTGGCTCCGCATCAAGATTTACTGTAACATCTCAACCTATTCTCCAAATGGGCAAGTCTGATCTGCTAATATAAACTGGGACATGTGTTGCAG
Seq C2 exon
CTGTAAGCTGTGCAGCCATCAGCCATCCTCAGAACGGCACTGTGAACTGTAGCCACTCCGTGGTTGGAGACTTTGCCTTCAAGTCATCCTGCCACTTCACCTGTGCAGAGGGCTTCACGTTGCAGGGGCCAACCCAGGTTGAATGCACTGCCCAGGGACAATGGACACAGCGGGTCCCAGTTTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007307:ENSBTAT00000009612:6
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:
PF0008415=Sushi=WD(100=92.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGAAGCCTCCCATGGAAC
R:
ACAGTTCACAGTGCCGTTCTG
Band lengths:
177-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development