HsaINT0041164 @ hg19
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:2336]
Coordinates
chr1:207647146-207647668:+
Coord C1 exon
chr1:207647146-207647230
Coord A exon
chr1:207647231-207647585
Coord C2 exon
chr1:207647586-207647668
Length
355 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TATAATCTGTCTCTCTGTAGGTA
3' ss Score
12.75
Exon sequences
Seq C1 exon
AAACATGCCAGCATGTGAGACAGAGTCTTCAAGAACTTCCAGCTGGTTCACGTGTGGAGCTAGTTAATACGTCCTGCCAAGATGG
Seq A exon
GTGAGTATGAAGTGGTCTATTCTGAGAAAAGGTCTCAACCTTGTTTTGTGGATTAACTTGACCTTCAACTTGTCTTGGTGGCATCCTTTAGAGGCTCCTCATTGTCACAGGCATGGAGAATATGAGGTTCCAATGGCCTAAATAGCAACTCTGACTCTTCAGTCGTCTCTTGACATGGAAAGGGCTTTGCTTAACTCAAAAGTAGTTTTTTTACTTGGAGTAAAAAAAAGTAGTTTTTTACTAGAATTTCAACTCCTCTCTGCCAAAGTTCTTATTTAGAAGTCCCTTTTTGCATGCAGTTTGAAGAGATATGATATTGGGAACAGGAAATGCATTATAATCTGTCTCTCTGTAG
Seq C2 exon
GTACCAGTTGACTGGACATGCTTATCAGATGTGTCAAGATGCTGAAAATGGAATTTGGTTCAAAAAGATTCCACTTTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322-CR2:NM_001877:11
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=PU(35.7=51.7)
A:
NA
C2:
PF0008415=Sushi=PD(61.9=89.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)