HsaINT0147126 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169701756-169702801:-
Coord C1 exon
chr1:169702717-169702801
Coord A exon
chr1:169702140-169702716
Coord C2 exon
chr1:169701756-169702139
Length
577 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TTTTCTTTTTCTCCCACTAGTGC
3' ss Score
10.39
Exon sequences
Seq C1 exon
GAAAGTATTTCAAGCCTAAACCTTTGGGTGAAAAGAACTCTTGAAGTCATGATTGCTTCACAGTTTCTCTCAGCTCTCACTTTGG
Seq A exon
GTAAGTCAGTGCCATTAGACCAAGATTTCTCATTCTCGCACTATAGATATTTCAGACTGAAATATCCTTGCTTGTCTGGGGCTGTCCTGCACAGGATATCTGGCAGCATCCTTGACCTCTACCTGCAATGTGTTCTTCCCTGGGCTTGGGGTCATTTACTTTACCTCTTGGTGTCTCCCTTTCCTTAAGTGTAAAGTGTGGATCATAATGACCTATTTCCCAGATGCATTGTGAGGATTCAATAGCATGGTTCATGGAAAGTACCTCATACAGTGCTTCTTGGTGCATACTAAGTGCTCAATAAAGCTTAGTTATTCTGATTATTATTCTACTACAAAATGGGTATACTATAATGTTGTGAGTGAGTGTGGATAAGGTACCTAGTGGGTGGCAGTCACAAAAGAGATAAACAATAAGTCGCTGTTTCTTCATACGTACTTCTTACTTTTGAAAAGATGAGAAAAGTCTGGGCCATGTCACAAACATTGCCAAAAATAAGACAATAAAAAGCACAGTTGTCAGAGTTAAACCACAACAGTACCAAACTCTACCATTTCTTTTCTTTTTCTCCCACTAG
Seq C2 exon
TGCTTCTCATTAAAGAGAGTGGAGCCTGGTCTTACAACACCTCCACGGAAGCTATGACTTATGATGAGGCCAGTGCTTATTGTCAGCAAAGGTACACACACCTGGTTGCAATTCAAAACAAAGAAGAGATTGAGTACCTAAACTCCATATTGAGCTATTCACCAAGTTATTACTGGATTGGAATCAGAAAAGTCAACAATGTGTGGGTCTGGGTAGGAACCCAGAAACCTCTGACAGAAGAAGCCAAGAACTGGGCTCCAGGTGAACCCAACAATAGGCAAAAAGATGAGGACTGCGTGGAGATCTACATCAAGAGAGAAAAAGATGTGGGCATGTGGAATGATGAGAGGTGCAGCAAGAAGAAGCTTGCCCTATGCTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=WD(100=86.8)
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:
TCAAGCCTAAACCTTTGGGTGA
R:
ATTGTTGGGTTCACCTGGAGC
Band lengths:
351-928
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)