HsaINT0147152 @ hg19
Intron Retention
Gene
ENSG00000188404 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:10720]
Coordinates
chr1:169672396-169673894:-
Coord C1 exon
chr1:169673709-169673894
Coord A exon
chr1:169672582-169673708
Coord C2 exon
chr1:169672396-169672581
Length
1127 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTTTTCTTTTTCATTGAAGTGA
3' ss Score
6.13
Exon sequences
Seq C1 exon
TGATTCAGTGTGAGCCTTTGGAGGCCCCAGAGCTGGGTACCATGGACTGTACTCACCCTTTGGGAAACTTCAGCTTCAGCTCACAGTGTGCCTTCAGCTGCTCTGAAGGAACAAACTTAACTGGGATTGAAGAAACCACCTGTGGACCATTTGGAAACTGGTCATCTCCAGAACCAACCTGTCAAG
Seq A exon
GTGAGTAACTTCAGACTAGAGGTTTTGTCATGCAATCCTGGGCTTACAGTCAGAACATTCAGTAGAAGTTTGCTGAGAAGTCAAACTTAGGAGCCTAATTTAACCTAACTTTGTTTAACCTACTGTGATGTTTCTCAAAGGACTTATTCTAACTAAATTTTTTTGAAAAACCTCCCAAACAAAAAGTAAAAACCAAATACCCCTGAAGCCATCTCCCAGTGTGTAACATGACTTATAGCAATACAGCATGGTTATACTGTGTTTTTTATTTTTCTCATTGCCATTGCATAAATAATGTCTTGTTGAACCTCAGTTACATTTTGGTTCTTCTCCTCTCAATAACACCTGTTTTATGTGGTGTCCTACTTAATACCAACCAGTTTCCTTCCCAGGGTAGTGGAGGTCTTTCTTGGTTGTTTTATTTGGCTTATTCTTAAAATCACTTTTACTTTTCCTCATGCATAAACTTTTAGGAGAATAACAACTGAAAAACAAAAACACAATCTCTTGATCTTTTCAAGTTTGAAATAAGGTAGGTTTTTTTTTTTTTTTCATTTTTAACTGCCAACCTTATCTCCATATGGGAGAAAACCAATGTCATCTGAACTTACGAAGTTTTGGTTAACTTTTCTACAAGTATGCTCCTGATGCATTAGTTTAAGTAGTTTAATTCTTAGAAGTGCTATCAAAATCCCTTATTGAAATTATAAAACTGTCAACCCACCTACTGGAATTTACGGAAGTTGGACTTGCTTCAGTGAATTGGGATGTTTTTCAAAATGCTTGGGTAGATATCAGAACAGATGAAACGGCAGAGATTCTCTGAGAATATCCCATAAGAGCCCTTGATGCAGAGGCCATATGGCATGGTACTTCCAGCAGAAGGGGAGGGTCACCTTAGCTAGGGCAGCAGCCTGGAGTAGCTACTCCTCTCCCCACAGCTTTCAATGCTTCCTTGCCTTCATCTCTCATTCACCACCCACCATCATTCTCAAGAAAATAAAGCCTGGAAGCAATATCACAAGTAATGTAGTCAGGCAGCTTTGGCTAAAAATCCTTTGCTCAAGGGAGGGTCTCTACTCAGAAATACTGTTTTGTCTTTTTTTTTTTTTTCTTTTTCATTGAAG
Seq C2 exon
TGATTCAGTGTGAGCCTCTATCAGCACCAGATTTGGGGATCATGAACTGTAGCCATCCCCTGGCCAGCTTCAGCTTTACCTCTGCATGTACCTTCATCTGCTCAGAAGGAACTGAGTTAATTGGGAAGAAGAAAACCATTTGTGAATCATCTGGAATCTGGTCAAATCCTAGTCCAATATGTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188404-SELL:NM_000655:5
Average complexity
IR-C
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=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGTGTGAGCCTTTGGAGG
R:
GGACTAGGATTTGACCAGATTCCA
Band lengths:
358-1485
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)