HsaINT0041163 @ hg19
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:2336]
Coordinates
chr1:207646117-207647230:+
Coord C1 exon
chr1:207646117-207646524
Coord A exon
chr1:207646525-207647145
Coord C2 exon
chr1:207647146-207647230
Length
621 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTCCATCCTTGCTTCTCCAGAAA
3' ss Score
9.47
Exon sequences
Seq C1 exon
AAATCACCTGCCCACCACCCCCTGTTATCTACAATGGGGCACACACCGGGAGTTCCTTAGAAGATTTTCCATATGGAACCACGGTCACTTACACATGTAACCCTGGGCCAGAAAGAGGAGTGGAATTCAGCCTCATTGGAGAGAGCACCATCCGTTGTACAAGCAATGATCAAGAAAGAGGCACCTGGAGTGGCCCTGCTCCCCTGTGTAAACTTTCCCTCCTTGCTGTCCAGTGCTCACATGTCCATATTGCAAATGGATACAAGATATCTGGCAAGGAAGCCCCATATTTCTACAATGACACTGTGACATTCAAGTGTTATAGTGGATTTACTTTGAAGGGCAGTAGTCAGATTCGTTGCAAAGCTGATAACACCTGGGATCCTGAAATACCAGTTTGTGAAAAAG
Seq A exon
GTAAAAACCCAATAAGGGGGAAAAAAGGAGAGATTTACTTAATTATTCTTGTTTATTATCTCCCACCCAAAACTGCATCATGGAAAGAGGCAAGAGGGGCACAGATTACTTTCTGTTTCTTCCATCCTATAATAGATGTTCTCTGTGTTGTGTGTGTGCATGCAAATGCCCCCTTGGATCTGGGATCTATTCAGGGTAGATAATGAGAGAGCCTTTTTAAAGAGCAAACAGCATTCAGTAGTGAATTTGAGCTTCATGATCTTTGGCATCAGAGTTTCAGACTGTCTGTCCAATGTTGTACACTTAGTGTTCTTGAGTAGAAATTCCTCTGTGTTGGTATTTATGTAGGGAGTTTTTCTCTTCAGGCTGCCAGTCACCTCCTGGGCTCCACCATGGTCGTCATACAGGTGGAAATACGGTCTTCTTTGTCTCTGGGATGACTGTAGACTACACTTGTGACCCTGGCTATTTGCTTGTGGGAAACAAATCCATTCACTGTATGCCTTCAGGAAATTGGAGTCCTTCTGCCCCACGGTGTGAAGGTACTTTAAGTTCCAGAGTTGTCCTTCTCTTTGATATGAGACATCTATAAATACTGTAATTCCATCCTTGCTTCTCCAG
Seq C2 exon
AAACATGCCAGCATGTGAGACAGAGTCTTCAAGAACTTCCAGCTGGTTCACGTGTGGAGCTAGTTAATACGTCCTGCCAAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322-CR2:NM_001877:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=48.9),PF0008415=Sushi=WD(100=40.9)
A:
NA
C2:
PF0008415=Sushi=PU(35.7=51.7)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACACATGTAACCCTGGGCCA
R:
GACTCTGTCTCACATGCTGGC
Band lengths:
346-967
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)