HsaINT0147171 @ hg19
Intron Retention
Gene
ENSG00000174175 | SELP
Description
selectin P (granule membrane protein 140kDa, antigen CD62) [Source:HGNC Symbol;Acc:10721]
Coordinates
chr1:169563930-169565372:-
Coord C1 exon
chr1:169565163-169565372
Coord A exon
chr1:169564116-169565162
Coord C2 exon
chr1:169563930-169564115
Length
1047 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GCATTATTTCTTTTCTGCAGCTG
3' ss Score
9.99
Exon sequences
Seq C1 exon
GCATAGCATCACTTCCTACTCCAGGGGTGCAATGTCCAGCCCTCACCACTCCTGGGCAGGGAACCATGTACTGTAGGCATCATCCGGGAACCTTTGGTTTTAATACCACTTGTTACTTTGGCTGCAACGCTGGATTCACACTCATAGGAGACAGCACTCTCAGCTGCAGACCTTCAGGACAATGGACAGCAGTAACTCCAGCATGCAGAG
Seq A exon
GTAAGGTGAAAAGGAGCAGGCAGTTCTGAACCTGCCTTCCTGCAAGTACTCAAGCTAGCCATTGTGCCTGTATGTTGAAGTCTCACCCAACCACAACCACTACTCCAAGTGTCATCTCCCTTATGAAATCCACACCAATCCCATTAGAAGTAATGTGTCACAGGCATTTCACTTCTGTCCTTCCTCATGTCACAAGCTAAAGCTAATACACAAGTACTCAGAGACTTAAAGGAAGAAACATTTGCAGATGTCCAAGATGTGTTAGAAAAATAGACATATTAAATGTAAAACCTGCTATAGAAATTGGTAAACTAGAAGTTGCATATTATGTGACAGTATAAACATTCCATATTTTCATAATAATTTGAACCTAAATAAAAAGTTAAGCCATACATGATATTTCCTGAAGAGCTATCGCCCTACACATAAAGCATTGAGACCTATGTTTCTTTCATTTTTGTATCCCCCACAAAACATAGCACAGTGCTTTGCAAATGTCACTACTGATAAATAACATTTATTTGAATTAAATCTAATTTCTTGACCTTTAATTTCCTATCCATAAATTAGAAAGAATAACCCTGAAGTTCCCTGAAAATGTAGTTTAAGGAGGATGACAGTCTACTTCTTTCAAACTTCCAGTGTCCAGATATGCTGAACACTTATTAAGTATTTCAATAAACACATACTGACATGCCAGTTGATCACAAATGTAGTAATAACATTTAGACTAACAGTATTTTAAGAACCAAAATTTTGTAAATAGTATATTTGGAGGCAAGATTTATCAATGCATTAGCAGGTATTTGTCGGATGCTACTATGTGTCCATCTTTGCATCTTGGTTCTTTGGATATCACCCTTCGAGAGAATATTTTCATATATGTGCTGTTAGAAGAGCTACTGTGAATATTGGAAGTGGCTCATATCCTTTCTGACCTTTTACATTCTGCCTCATTTATTGGCAATGTTAGGTTACAAAAGAAACTATAATCTCTTTCACCTCCAATCCACATGTTGTTTCTCTTGCATTATTTCTTTTCTGCAG
Seq C2 exon
CTGTGAAATGCTCAGAACTACATGTTAATAAGCCAATAGCGATGAACTGCTCCAACCTCTGGGGAAACTTCAGTTATGGATCAATCTGCTCTTTCCATTGTCTAGAGGGCCAGTTACTTAATGGCTCTGCACAAACAGCATGCCAAGAGAATGGCCACTGGTCAACTACCGTGCCAACCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000174175-SELP:NM_003005:12
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:
PF0008415=Sushi=WD(100=81.7)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)
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:
TTCCTACTCCAGGGGTGCAAT
R:
CTCTTGGCATGCTGTTTGTGC
Band lengths:
347-1394
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)