HsaINT0147121 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169702717-169703220:-
Coord C1 exon
chr1:169703112-169703220
Coord A exon
chr1:169702802-169703111
Coord C2 exon
chr1:169702717-169702801
Length
310 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
TTTGTGTTTTATCTCCCCAGGAA
3' ss Score
11.72
Exon sequences
Seq C1 exon
AGCTGTTCTTGGCTGACTTCACATCAAAACTCCTATACTGACCTGAGACAGAGGCAGCAGTGATACCCACCTGAGAGATCCTGTGTTTGAACAACTGCTTCCCAAAACG
Seq A exon
GTAAGTGCAGAACGCTTTATAAGGGCAGCCTCGGGCCATGAAACACAGATATGCAAAAGGCCTTCTAATAAAAACCACATCTGTACAAGCTCTTATTGTATTGTAGCTAAAACCTGTCTTTTCTCTTTGACCTAAATAATGAAAGTCTTAAAATTTGTTTATTTATTTGATTAAACTCTGAAATAAAGATTATTGCACTAGTGTCCTTTGCCCAAAATCTTAGGATGCTGCCTTAAACATCATGGTAGAATAATGTAACTAGCTACCCACGATTTCCTTCTTTAATTCATTTTGTGTTTTATCTCCCCAG
Seq C2 exon
GAAAGTATTTCAAGCCTAAACCTTTGGGTGAAAAGAACTCTTGAAGTCATGATTGCTTCACAGTTTCTCTCAGCTCTCACTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGTTCTTGGCTGACTTCAC
R:
AGTGAGAGCTGAGAGAAACTGTG
Band lengths:
190-500
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)