HsaINT0147150 @ hg19
Intron Retention
Gene
ENSG00000188404 | SELL
Description
selectin L [Source:HGNC Symbol;Acc:10720]
Coordinates
chr1:169676483-169677944:-
Coord C1 exon
chr1:169677558-169677944
Coord A exon
chr1:169676591-169677557
Coord C2 exon
chr1:169676483-169676590
Length
967 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TTTTTCTGACCTCCTTAAAGCTT
3' ss Score
7.78
Exon sequences
Seq C1 exon
ATTTCCTGGCACATCATGGAACCGACTGCTGGACTTACCATTATTCTGAAAAACCCATGAACTGGCAAAGGGCTAGAAGATTCTGCCGAGACAATTACACAGATTTAGTTGCCATACAAAACAAGGCGGAAATTGAGTATCTGGAGAAGACTCTGCCTTTCAGTCGTTCTTACTACTGGATAGGAATCCGGAAGATAGGAGGAATATGGACGTGGGTGGGAACCAACAAATCTCTTACTGAAGAAGCAGAGAACTGGGGAGATGGTGAGCCCAACAACAAGAAGAACAAGGAGGACTGCGTGGAGATCTATATCAAGAGAAACAAAGATGCAGGCAAATGGAACGATGACGCCTGCCACAAACTAAAGGCAGCCCTCTGTTACACAG
Seq A exon
GTAGGGAGTGACAAGACGGCTATGCTGCCTCAGACTCAGGAAGGGCCACGGTTAAGAGAATACTCAGATTTACCCCATGGAAAGGTGGGGGGATGAGAACAGCTTCTGGTTCATTCTAAAATACATCTAGCCCTCTATATAATCTTGCATCGTGTCACTCCTAAGAATTTTTGGTGTGTAAGATTTGTCCCTGTGCACAAAAGCTATACCCCTAAATCAAGTTACATCAAAATGATAGATCTACGTAGGAAGTACAGAGGAAGAGCTAGACAATCAGTGCCTTTGATAATAAGGCAGGGGAGGAGAAGCTGACAGCTGGGGCCAGTTGGAAACTTAGGCTCACATCACCTCAGTTTTCACATTGTGAAGTAGAGAGTGTGGTGCTGCGTGCTTCCTTCTTGGTCTAACCTTATATAATTTTATATAAAAATTGCACTATCTTTGGTGTATGAATATTTCTGTAAAATCTTCTACAATTCCAAAACAGCCAGCATTTTCCAAGTGATGTTTTAATAATGAACCATAGTTAATTTGGTCTCTTATAAATTGGACTCTACCGTTTTAGCAAATTTGGACTTTTTAATCTTTGATTTCTATAAAGAAAGGGATTGCCAAGAAATAATTGCATGCAGAAATGATTGAGGTCAGGTCATCATTTAACCTTCTCACTCATTAAAAACAAGTAATTTCAAGAGTTTCAAGGTATGCCACTAAGTTTCCTATAAGTGTTACAGAATATTAGTATTGGTAATTTCATTCCAAAAGCAAATAAATGCCTATGACTATATGCTTAGTGTATTTTATACGTAAAAATTTTAGCATATGATTTTTATGCTATGAATTTACAAATAAACCTTTCCTGATTATTTAAATCATCTCAGACAAAAGGTTATCTATGTCTAAAGAAATGACTTTGAGTACTAAAATGTAATCACATTAAAATATTTTTTTTCTGACCTCCTTAAAG
Seq C2 exon
CTTCTTGCCAGCCCTGGTCATGCAGTGGCCATGGAGAATGTGTAGAAATCATCAATAATTACACCTGCAACTGTGATGTGGGGTACTATGGGCCCCAGTGTCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188404-SELL:NM_000655:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=83.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGCTAGAAGATTCTGCCGA
R:
ATTCTCCATGGCCACTGCATG
Band lengths:
358-1325
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)