BtaINT0130638 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011515 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:HGNC:10720]
Coordinates
chr16:38168853-38170766:-
Coord C1 exon
chr16:38170380-38170766
Coord A exon
chr16:38168961-38170379
Coord C2 exon
chr16:38168853-38168960
Length
1419 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
ACTTTCTGACCCCTTTAAAGCTT
3' ss Score
7.14
Exon sequences
Seq C1 exon
ATTTCTTTGCTCATCATGGCACCGATTGCTGGACTTACCATTATTCTAAAAGACCCATGCCCTGGGAAAAGGCTAGAGCGTTCTGCAGGGAAAATTACACAGATTTAGTTGCCATACAAAACAAGGGAGAGATCGAATACCTGAATAAGACACTTCCCTTCAGCCGTACTTACTACTGGATTGGAATCCGGAAAGTAGAAGGGGTGTGGACTTGGGTGGGAACCAACAAATCTCTCACTGAAGAAGCAAAGAACTGGGGTGCAGGGGAGCCCAACAACAGGAAGAGTAAGGAGGACTGTGTGGAAATCTATATCAAGAGGAACAAAGACTCGGGGAAATGGAATGATGATGCCTGCCACAAAGCAAAGACAGCCCTCTGCTACACAG
Seq A exon
GTAGGGACCGACCAGACTGCTGCACTGCTCAGGGAGGGCAGAGTGCTGGGAACGAACGTGCTAACCCCATGGGAACCTGGGACCACAGAGCAGCTGCTAGGGCATTCTGAAATAGGCCAGTCCTCTAAACAAGCTTGAATCATGTCACTTCTAAGCATTTTTGGTGGGTGAGACTAGGCCCTATGCCCAAAATCCTTATGCCTGAATCAGTTTACATTAAGATGACAAATCCATGTGGAAAGTAAAGAGGAAGAGCTAGACAGTGAGTGTCCCTGATAATAAGGCAGGGAAGCGGAAGCAGAGGGCCAAGAGCTGATGCTCACATCACTTGTTTCCTCCCTCATGAAGTAGGCGACTTGATGCTACATGTTTCATTTTTGGCCTAATCTTATAGTGTTCAGTCATGTCCCATTCTTTGTGACCCTATGGACTATATAGCCCATTAGGTTCCTCTGTCCATGGGCTTATCCAAGCAAGAATATTGGAGTGGTTACCATTTCCTCCTCCAAGGGATCTTCCTGACCCAAGGATCGAACCCTCGTCTCTGGCATCTCTTGCATTGGCAGGTAGATTCTTTACCACTGAGTCATCTGGGGAGTCCTAGTCTTATAGAATTCTATGTAATGACACTTTGCAGTATTTCATTATCTGTGGTATGTGAAAATTTCTGTAGAGACAATGGTGACAGTTCAAAAGTAATCAGTATTTTTCCAAGTTATTTTTAACAGTGAAACATTCATTCAATCTCTTGTTCACTTGGACTCTCTACCAATTTAGCAGGGCTTCTTCCCAGGAGGTTCAGTGGTAAAGAATCTGCCTGCCAATGGAGAATACACAGGAGACTTGGGTTCAATCCTTGGGTCGAGAAGATCCCCTGGAGTGGGTAATGACAACCCACTCCAGTATTCTTGCCTGGAAAATTCCATGGACAGAAGAGCCTCATGGGCTAGAGTCCGTAGGGTGACAGAGTTGAATACTACTGAGCACGCATGTGCGTACTAATTCAGTAAGTTCAGACTCTCTAATTTTTGTTCAGTACTTTCTATAATGAAAGGGATTGTCAAGCATACTAGAGAAGTGATTGGGGTCAGGTTATCATTTAATCCACTTACTGCATCAAAAACAAAACGTAAAGAAATTTTAAGAGTTTCAATGTATATCACTGTTTCCCCTAAATGTTATAGAGTATCAGCTTCAATAAGTTCATTCTAAAAACAAATGTCTATGGCTGTATGACAACTATATTGTATAAATAAAAATTTTAGGATATGGTTTTTATGCAAAAATGGTATGAATGTACAAATATACTTTTCCCTGTTTGTTAAAATAGTCACAGCCAAAAAGTTGTTTATATCTAAAGAAATGACTAGGAGTACTAAAAAAGTATCCATCTAAAAATACTTTCTGACCCCTTTAAAG
Seq C2 exon
CTTCTTGTAAACCCTGGTCATGCAGCGGCCATGGACAATGTGTGGAAGTCATCAATAATTACACCTGCAACTGTGATTTGGGGTACTACGGGCCCGAGTGTCAGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011515:ENSBTAT00000046865:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.046 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCCCTGGGAAAAGGCTAG
R:
GCTGCATGACCAGGGTTTACA
Band lengths:
358-1777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development