BtaINT0130641 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011515 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:HGNC:10720]
Coordinates
chr16:38158733-38160876:-
Coord C1 exon
chr16:38160691-38160876
Coord A exon
chr16:38158869-38160690
Coord C2 exon
chr16:38158733-38158868
Length
1822 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTTACTGATTTCTCTTTCAGAAA
3' ss Score
10.97
Exon sequences
Seq C1 exon
TGATTCAATGTGAGCCTCTAACAGAACCCGATTTGGGAACCATGGACTGTAATCACCCCCTTGTCGACTTTGGCTTTTCCTCCACATGCACCTTCAGTTGTTCAGAAGAAGCTGAGTTAACTGGGGAGAAAAAAACTATCTGTGGATTGTCTGGAAATTGGTCCAGCCCTAGTCCAAGATGTCAAA
Seq A exon
GTGAGTAAGTCTAGTCCAATATGTTCAAGACTTAAAGAGGTATTTGATGAATAAGCAGATGGTGGGAAAAAAATTAAACTTTTAAGTTTTGTTGCTAAGACATATGTAGCTTAAAAATAAATTCATACACATTGATTTACCATAAAATCCTTGGCTGCTCTTTCTTCTTCCTTCAATGACAGTGATTGTTTTTTTTTTCCAGCCAGTTCTCAACTCCTCCTCCCTTAACATCTAAACTCACTGTCTCTACTGACTTATTTCTTATCCATTTTTCTATTCCAGTACAATCTCACTTCTCTGTTAGTCTACTAAAATGTCTCCACAAAAGTCACCGATGATCACCTAATTCCCAAAGTAATGGATACTTCTCCATGATCACAAGATTGATTCCTCCCAAATCTGTCTGTGCATAAGAAGAACTGTGTCTTCCTCATCTCTGTATACCCTCCACCTGACACAGCGCCTGGCAATAGGTGCTATATTAATCCATGTTCAATTAGCATTTGACAGAATAGTTACCCATGTCTGCCCCAAGACTACACCAATGAAAGAACTCTTTATTTTTGTCTTTTTTAAAGGCTCTATTTTTATTGGAGTGTAAATGTTTTACAATGTTGTGTTAGCTTCTGCTGTACAACAACATGAATCAGCTCTAAGTATACACATATGCCCTCCCTCTCAGCCTCCCTTGAACCACCCCCATCCCACCCTCTAGGTCATCACGGAGCACTGAGCTAAGCTCCCTATGCTATACAGCAGCTTCCCACTAGCTATCTATTCACACGTGGTAGTGTAAATATGTCAGTGCTACTCTCCCAATTCATCCCATGGCAGCAGTCCTTAAGTGGCAGGATCTGTAGAAGCTCACAGAGAAGCTGATCTCTCTGTGGTCTGGGGCCAGGAAGTGGGGTAGGGAGCTGGGGAGGTGGCATGGGGTCTTTAGAGGAGGACTGTACATCAGGCTTATGGGGCATTACCTTTAAGGGCTGGGCTAGTGTCTGCCTCCTTAACCTCCTACAGTCCATAGGTACAACCCTCTGGGAATTGCACCTCCTTTCCATTATACATTTGGGTGCGGGGATGAAAACACCTTGAAAGGATTCATCAAAGTGATGTGAAGAATAAGGGACAGTCAGACCCTGTGCCCATATGCAAAAGTAAGTTTCTTCAACTGGTGGTATCAGAAGATAAATTTTTTTATATCAGTATTTTTTCAATAAAGTTCCCCACATAAACTTAGTTCACCCTTATGAGAGGATATATAGATGTATCCTTTTATTTATTTGTGAAGAAAGTAGAGGGAAATGGTAGGACTACAGCATTTGAAAGACAAATTAGTGCAAGTCCTTGGCATGTAATTTTATGTGCCTGTGTTTGCACAGCTGCTTCAAAGCCTTAACACTTTGCTTTGATTGAAAAGTTACCTGGTTCAGATCACTGGCTTTTATTTTTTCTGTAGTCATACTAGACTTTTTAGTTCTTCTGTATGTTTGAGTCCTAGGCAGTGAACAAGATCATGGAGCTAAATACAATGATGACCACTTTTTACCAAAATATTTAGGTACATCTCCCAGGAATTCTATGACTCACAAATCTGAGGATTGAGATTCTGTAGGCATTGAGCCAGAAAAGCTAGTTTAGTCTTTGCTTCTGCGATACACTCATCATGGGTTTTCCTAGGCCAGTTTCCTCATCTGTCTAATAGTGTCAAATGGACAATTATTAGAAGATGTAAGGAGGAAGAAAGTTTAATGTTTTGAAAAGGCACTAAGGAAATAATGCTTGTGGCCTCATCTAAATGTTTTACTGATTTCTCTTTCAG
Seq C2 exon
AAATAAACAGGACTATCTCAATAAATGAAGAGAGTGATTATAACCCCCTCTTCATCCCGGTGGCAGTTATGGTTACTGCATTCTCTGGGTTGGCATTTATCATTTGGCTGGCAAGGAGATTAAAAAGAAAAAGTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011515:ENSBTAT00000046865:6
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:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTCAATGTGAGCCTCTAACAGA
R:
TTTTTCTTTTTAATCTCCTTGCCAGC
Band lengths:
318-2140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development