HsaINT0147153 @ hg19
Intron Retention
Gene
ENSG00000188404 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:10720]
Coordinates
chr1:169670701-169672581:-
Coord C1 exon
chr1:169672396-169672581
Coord A exon
chr1:169670830-169672395
Coord C2 exon
chr1:169670701-169670829
Length
1566 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTTACTGATTTCTCTTTCAGAAT
3' ss Score
10.95
Exon sequences
Seq C1 exon
TGATTCAGTGTGAGCCTCTATCAGCACCAGATTTGGGGATCATGAACTGTAGCCATCCCCTGGCCAGCTTCAGCTTTACCTCTGCATGTACCTTCATCTGCTCAGAAGGAACTGAGTTAATTGGGAAGAAGAAAACCATTTGTGAATCATCTGGAATCTGGTCAAATCCTAGTCCAATATGTCAAA
Seq A exon
GTGAGTAAGTTTGTCCTGGAAAACTGAAATCTTAACGATGGAGCTGATGGATGAGCAGATATGAGGAAAGACATACATAAACATTTACATGTTGTTTTGCTAAGAATATGTGGCCTAGAAATAAATTTGTATGCTTAACTCACTGTAAAATCTTTGGCTGGTCTTTCCTCCTCCTTTAATGACAATCATTTCCTTTTTTTGTTCTCACCTCTTGCCATCTTAACTCCTAAAATCTGAACTCACTGATTTACTTTTTACCCATTCTTCTATTCCACTACAATCTAACATCTCTGTTAGCCCATTGAAATGCCTGTAAAAGGTCACTAATGACCACCTACTTCCCCAAATAATGGATACTCCTGAATCATCACTAAGCTAATGCCTCCAAAATCTATCTGTATATGAGAAGAATCATGTCTTGTTCATCTTTGTATACCCTCCACCTGACACAGTGCCTGGCAATAGGTGCTAAAGCAAATGCATGTTAAGCTAGCATGTGAAAGAATAGCTACCTGTGTCTGCTCCTGAGACTATCTGCATGGATGACAAAAGTCTTTAAATGGTAGGATCTACAGAAGCTGTCAGAAATGCTGATCTCTGTGTGCTGCGTGCCCAGGGCCAGGGAGTAGAGTGGATGAGCAGAGAGAGGCAGGGAGGCCTTTAGCAGAGGACTGTGTATTAGGCCTATCAGAGACATTTCCCTTTAAGGCCTAGCTAGTGTTCATTTCCTCCTCATCTTCATCAAGCCAACAGGTACCTTCTGTCTGGAGCTCCTGGGAACTTGAGCCTTCTCTCAATCATATATTTGGGTGTGGGGATCAAATCACCTTGAAAAGGTTCATCAAAGTAATGGGAAGAACTAAGGATAGAATCAGACCCTCTGCCAATATGTAAAAAAGTAGATTCCTTCAAATGTTAGTATCAGGAGACAGATTTTTTTTTATACCAGTATTTTCAAATAGAGGCTCCCAAATGAACTTAGTTTACACTTACAAGAGTATCTCTAAACATGCCCTTTTACTTATTCGTGAAGGAAGTAGAGGGAAGTGGTAACTACTGCATTGGAAAGAAATTAGTGCAGGTCCTTGGCATGTAAAAATCAAGTGCTTATTTTTGCACAACTGCTTTAAAGTAAAAGCATTAATGATTTCCTTTGACTGGTGAATTATCCAGTTCAGATCATTGGCTTTTATTTTTCCTGAAGTTGTATTAGGCTTTTAGCTCTTCTCTGTGTTTCAGAGTTCCAGTCATTGAACAAGTCCATGGAGCTAAATACAACGATGACCATTCTTGCCAACATTTTTAGGTGCATTTTCAGGAACTCTATGAACCACAAATCTGGGCATTGAGATTCTGTAGGCATTAGACTAGCAAGGCTGGTCCAGTCTTTGCCTATGCTGTAGACTCATCAGGGGCCTTCCCATGCCAGTTTCCTCATCTGTCAAATGGCATCAAATGGGCTACTACTGGGAGATGTAAGGAGGAAAAAAGTCAAATATCATGAGATAGACTAAGGAAATAATGCTGGTGGTCTCATGCTATGTGCCTTACTGATTTCTCTTTCAG
Seq C2 exon
AATTGGACAAAAGTTTCTCAATGATTAAGGAGGGTGATTATAACCCCCTCTTCATTCCAGTGGCAGTCATGGTTACTGCATTCTCTGGGTTGGCATTTATCATTTGGCTGGCAAGGAGATTAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188404-SELL:NM_000655:6
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:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
GATTCAGTGTGAGCCTCTATCAGC
R:
TTTTAATCTCCTTGCCAGCCA
Band lengths:
310-1876
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)