HsaINT0147130 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169698327-169698814:-
Coord C1 exon
chr1:169698629-169698814
Coord A exon
chr1:169698516-169698628
Coord C2 exon
chr1:169698327-169698515
Length
113 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
AATGCGTATATTTGTTACAGCTG
3' ss Score
7.1
Exon sequences
Seq C1 exon
TGGTTGAGTGTGATGCTGTGACAAATCCAGCCAATGGGTTCGTGGAATGTTTCCAAAACCCTGGAAGCTTCCCATGGAACACAACCTGTACATTTGACTGTGAAGAAGGATTTGAACTAATGGGAGCCCAGAGCCTTCAGTGTACCTCATCTGGGAATTGGGACAACGAGAAGCCAACGTGTAAAG
Seq A exon
GTAGAGTTGTTCCACATGGAGACTTACTGTGAACATTCTTTCTCTCAACCCATACTGGAAATGGGCAAGCTAATTCTAGGCCGTGCTAATATCAATGCGTATATTTGTTACAG
Seq C2 exon
CTGTGACATGCAGGGCCGTCCGCCAGCCTCAGAATGGCTCTGTGAGGTGCAGCCATTCCCCTGCTGGAGAGTTCACCTTCAAATCATCCTGCAACTTCACCTGTGAGGAAGGCTTCATGTTGCAGGGACCAGCCCAGGTTGAATGCACCACTCAAGGGCAGTGGACACAGCAAATCCCAGTTTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:6
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=PD(93.8=95.2)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGTGACAAATCCAGCCAA
R:
TGAACTCTCCAGCAGGGGAAT
Band lengths:
248-361
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)