HsaINT0147178 @ hg19
Intron Retention
Gene
ENSG00000174175 | SELP
Description
selectin P (granule membrane protein 140kDa, antigen CD62) [Source:HGNC Symbol;Acc:10721]
Coordinates
chr1:169582167-169582931:-
Coord C1 exon
chr1:169582824-169582931
Coord A exon
chr1:169582353-169582823
Coord C2 exon
chr1:169582167-169582352
Length
471 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CACTATTTTGTCTCCTGCAGTGA
3' ss Score
9.39
Exon sequences
Seq C1 exon
CCTCCTGCCAGGACATGTCCTGCAGCAAACAAGGAGAGTGCCTCGAGACCATCGGGAACTACACCTGCTCCTGTTACCCTGGATTCTATGGGCCAGAATGTGAATACG
Seq A exon
GTGAGGCTTCCTTTTTGTTGATATTATTTTGGTTTTATGCTAGAGATGATGCCAAGAAGTAAATAAATCATGTTGAAGTCTCTCCAGTGAGAATAGGATGGTACCAGCCCCCCTCTATCATCTGTCTCCTCCACTCAGTGTCCCTAGACACACACTCTAGGTAAAAACATTTTATTCTTGGGAGAAAACATTGACTCATAAATTTCAAAAAAGAAAAGGGAAAGGGAAAGGAAGCAAAACCAACAGAACTTTCAGGCTAATTTTACTTGTTTGAAGTAAAAACTTGTGAAAGAATGACTATTTCCCAAGATGCAGCCAATACAAAGAGACCAAGTAGAGATGGATAGCTTGGGTTAAAAGTTTAGAAAATTAGAGTTAAGAGGGTTACACAAATAGTTACAGCTTTCAGCAAACATGACATTGCTGTTAATTCTACATGGAAAATAAAAATCACTATTTTGTCTCCTGCAG
Seq C2 exon
TGAGAGAGTGTGGAGAACTTGAGCTCCCTCAACACGTGCTCATGAACTGCAGCCACCCTCTGGGAAACTTCTCTTTTAACTCGCAGTGCAGCTTCCACTGCACTGACGGGTACCAAGTAAATGGGCCCAGCAAGCTGGAATGCTTGGCTTCTGGAATCTGGACAAATAAGCCTCCACAGTGTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000174175-SELP:NM_003005:4
Average complexity
IR-S
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:
PF0000822=EGF=WD(100=81.1),PF0008415=Sushi=PU(4.7=8.1)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCTGCCAGGACATGTC
R:
CTAAACACTGTGGAGGCTTATTTGT
Band lengths:
294-765
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)