HsaINT0147122 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169695840-169696666:-
Coord C1 exon
chr1:169696490-169696666
Coord A exon
chr1:169695948-169696489
Coord C2 exon
chr1:169695840-169695947
Length
542 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
TTCGTCTCTTACTTCCTTAGCTC
3' ss Score
7.94
Exon sequences
Seq C1 exon
TGGTAAAATGTTCAAGCCTGGCAGTTCCGGGAAAGATCAACATGAGCTGCAGTGGGGAGCCCGTGTTTGGCACTGTGTGCAAGTTCGCCTGTCCTGAAGGATGGACGCTCAATGGCTCTGCAGCTCGGACATGTGGAGCCACAGGACACTGGTCTGGCCTGCTACCTACCTGTGAAG
Seq A exon
GTGATGCATTGATTGATGGTGGTTGTCTGGTGATTAAAAAGAAAAAGGGGGAGCTATCTTGTTACAGTAATCAACTATTCATTATATCCAAACCAGAAAGTTCGCCCAGGTTGACAAGTTGTGAATATTAAGTTGTATGGGGATAGAGAAAAAACAGAAGTTGCATGTTGATGGAAAGGGTAGAATTCTGACAACTGGAAAAAGGAGACAGAGAGAGGAGAGGAGAAAGGGGAAATGGAAAACAAGAGGGAGTGAGAGCAAGAGAGCAAGCAAGTGCAGTGTTTATTAACCAAGGTGTGGTGTGGTATTGTGAACGAGCTTGGCAAGTTAGAGTTCTGCCTGCCAATGGTGGAAATAGCTTCAAAGGTGGCTTGGAGCAGATCTCAAAGGCCTGTAATGCCACATCTCTGCTTCTTGTATTAAACTAGATAGCTCTTCTGCTCCTAGTAATGAATGTACAGAAAAAAGGCCAAAGGGACAGGACGGAGAGACTTTAACATCAATTCTTCCTCATGACCTTTCTTCGTCTCTTACTTCCTTAG
Seq C2 exon
CTCCCACTGAGTCCAACATTCCCTTGGTAGCTGGACTTTCTGCTGCTGGACTCTCCCTCCTGACATTAGCACCATTTCTCCTCTGGCTTCGGAAATGCTTACGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:10
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=91.7)
A:
NA
C2:
NO
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:
AAAATGTTCAAGCCTGGCAGT
R:
TCCGTAAGCATTTCCGAAGCC
Band lengths:
278-820
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)