HsaINT0147133 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169696490-169697068:-
Coord C1 exon
chr1:169696880-169697068
Coord A exon
chr1:169696667-169696879
Coord C2 exon
chr1:169696490-169696666
Length
213 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
TGTGTACCTAACATTTGCAGTGG
3' ss Score
5.17
Exon sequences
Seq C1 exon
CTGTGAGATGCGATGCTGTCCACCAGCCCCCGAAGGGTTTGGTGAGGTGTGCTCATTCCCCTATTGGAGAATTCACCTACAAGTCCTCTTGTGCCTTCAGCTGTGAGGAGGGATTTGAATTACATGGATCAACTCAACTTGAGTGCACATCTCAGGGACAATGGACAGAAGAGGTTCCTTCCTGCCAAG
Seq A exon
GTAGAATTGAGTGCAGACTTTTTTAGGGTACAGGTCAAATACTTCATAAAGTTTCTGAACCTAGATTGCCCCAAAGGGGTTTGGTCCTAATTTCCTACATGCTGAAAACTAAGTAGCGCTTACACTTTACATTCATTGTTGACTTTTAAGCAAGTTTTGGAAGTTTTCCAGTAGATTTTTCTGAAACTCTGCCTGTGTACCTAACATTTGCAG
Seq C2 exon
TGGTAAAATGTTCAAGCCTGGCAGTTCCGGGAAAGATCAACATGAGCTGCAGTGGGGAGCCCGTGTTTGGCACTGTGTGCAAGTTCGCCTGTCCTGAAGGATGGACGCTCAATGGCTCTGCAGCTCGGACATGTGGAGCCACAGGACACTGGTCTGGCCTGCTACCTACCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:9
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=92.2)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGATGCGATGCTGTCC
R:
CCATTGAGCGTCCATCCTTCA
Band lengths:
304-517
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)