HsaINT0147129 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169698629-169699758:-
Coord C1 exon
chr1:169699573-169699758
Coord A exon
chr1:169698815-169699572
Coord C2 exon
chr1:169698629-169698814
Length
758 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
3' ss Seq
GTGCTCTTTAAAATCCTCAGTGG
3' ss Score
4.77
Exon sequences
Seq C1 exon
TTGTGAACTGTACAGCCCTGGAATCCCCTGAGCATGGAAGCCTGGTTTGCAGTCACCCACTGGGAAACTTCAGCTACAATTCTTCCTGCTCTATCAGCTGTGATAGGGGTTACCTGCCAAGCAGCATGGAGACCATGCAGTGTATGTCCTCTGGAGAATGGAGTGCTCCTATTCCAGCCTGCAATG
Seq A exon
GTAAATCCCTCTGAGAATGCACAGAACGTTCTGTAACTCATCCCTCATTGCTTCTGTTTTTTGATTCAACTTACATTTTCAAAACTTCAGGGAAAGTTTTTTTTTTGTTTTTGTTTTTAATACAATTTGTTCTCTCAGCCAATGTATATTGCCAACCCAGTACCTGCTTGGGTTGAGAGAGGTTTTTTTATTCTATGCTTGAAATGGGTGTTTCTGAGGCTCTGGTGATTTGTAAGGGAGACCATAAAACAATAAAGCTCTAGAAATCTCAATGGATTTCTCATCTTGTTTCCCTGTTTAACTTTTCCAAGCCATGGGACTAACTTAAGACCATGATAGTCAAGCAGTCTTAGTATCTCTTTTTCTCTCTTAATTTTATCTTTCTGAACCAGAGGCCAAAAAAAGAAAAATCAGTTCTTCAGGCTCTGATGGGCTAAAATAAATGAATAGCCTACGTATGTCAGTACTAGTCATAACTCCTAATCTGGAATCTATTTTTTTTAAATTTTTACCTCACGTAAATGATAACATAGATTAGAGACCACTCAGCATAGGCAAAGTGGAAATCAGAAAAGATAGAATATCCATGAAAAAGAATAAAAGCTTTTATTCTGGCTGTGCATGTCCCTAAGAATTGACATAGGACTTTGGGATCTACCCTTTGAAGGCAGCTTCCTCACTCTGTTAGGCACCCAGCTCAATAGGAAGTGAAAAGATCATTCTTCTGTAAAATTCATGGTGCTCTTTAAAATCCTCAG
Seq C2 exon
TGGTTGAGTGTGATGCTGTGACAAATCCAGCCAATGGGTTCGTGGAATGTTTCCAAAACCCTGGAAGCTTCCCATGGAACACAACCTGTACATTTGACTGTGAAGAAGGATTTGAACTAATGGGAGCCCAGAGCCTTCAGTGTACCTCATCTGGGAATTGGGACAACGAGAAGCCAACGTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:5
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=92.1)
A:
NA
C2:
PF0008415=Sushi=PD(93.8=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATCCCCTGAGCATGGAAGC
R:
GTTGGCTTCTCGTTGTCCCAA
Band lengths:
344-1102
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)