HsaINT0147153 @ hg38
Intron Retention
Gene
ENSG00000188404 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:HGNC:10720]
Coordinates
chr1:169701560-169703440:-
Coord C1 exon
chr1:169703255-169703440
Coord A exon
chr1:169701689-169703254
Coord C2 exon
chr1:169701560-169701688
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:ENST00000236147:6
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
Other assemblies
Conservation
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