HsaINT0041165 @ hg19
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:2336]
Coordinates
chr1:207647586-207648561:+
Coord C1 exon
chr1:207647586-207647668
Coord A exon
chr1:207647669-207648168
Coord C2 exon
chr1:207648169-207648561
Length
500 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCCCTAAATCTCTTCTGCAGTTA
3' ss Score
7.74
Exon sequences
Seq C1 exon
GTACCAGTTGACTGGACATGCTTATCAGATGTGTCAAGATGCTGAAAATGGAATTTGGTTCAAAAAGATTCCACTTTGTAAAG
Seq A exon
GTAAGTTAGAAAAAATAAAAGCCTGACAATGGTAATGGAGGATTAGAGAGGGCAGGCCACTGAAGAATTAGTCTACTGCTGCTTCAGCAGTCTTAGGCGTCTCCCTCATTGGAGGTTAGATAAGAAAAATCTTATGGTGTTGGTCAGTATTGACACTGAGAAACAACATTGTCAAGTAGGAACTGTTTTTCATGCATCTGCTAATTTTGCTAACAATAACAAAATATATAGCCCATATTCCTAGGTCATGGGAACATAGCTGTATTTCTTTCTTCCTTCACACTTTACTCTATTTTCTGAATTTTTATGGAGTATATAGTACTCCTATAATCACATTTAATAAAGCTGTTTTTAAAAAAAGCATAATCCATATTCCAAAATTTAAGTTATTTTCTAGTTATGTGAAATATATGCAGTTGCATATTGTCATTTGTACCTGAATGAAGACCGCTCACCTTGAGGTACTAGCTGAAGTAGAACTCCCTAAATCTCTTCTGCAG
Seq C2 exon
TTATTCACTGTCACCCTCCACCAGTGATTGTCAATGGGAAGCACACAGGCATGATGGCAGAAAACTTTCTATATGGAAATGAAGTCTCTTATGAATGTGACCAAGGATTCTATCTCCTGGGAGAGAAAAAATTGCAGTGCAGAAGTGATTCTAAAGGACATGGATCTTGGAGCGGGCCTTCCCCACAGTGCTTACGATCTCCTCCTGTGACTCGCTGCCCTAATCCAGAAGTCAAACATGGGTACAAGCTCAATAAAACACATTCTGCATATTCCCACAATGACATAGTGTATGTTGACTGCAATCCTGGCTTCATCATGAATGGTAGTCGCGTGATTAGGTGTCATACTGATAACACATGGGTGCCAGGTGTGCCAACTTGTATCAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322-CR2:NM_001877:12
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=0.030
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PD(61.9=89.7)
A:
NA
C2:
PF0008415=Sushi=WD(100=46.2),PF0008415=Sushi=WD(100=42.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
TGCTGAAAATGGAATTTGGTTCA
R:
AAGCCAGGATTGCAGTCAACA
Band lengths:
357-857
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)