HsaINT0041167 @ hg19
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:2336]
Coordinates
chr1:207649579-207651415:+
Coord C1 exon
chr1:207649579-207649764
Coord A exon
chr1:207649765-207651229
Coord C2 exon
chr1:207651230-207651415
Length
1465 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
TTAGATTTCTTTAATTTCAGAGG
3' ss Score
5.38
Exon sequences
Seq C1 exon
CCTTCATAGGGTGTCCACCTCCGCCTAAGACCCCTAACGGGAACCATACTGGTGGAAACATAGCTCGATTTTCTCCTGGAATGTCAATCCTGTACAGCTGTGACCAAGGCTACCTGCTGGTGGGAGAGGCACTCCTTCTTTGCACACATGAGGGAACCTGGAGCCAACCTGCCCCTCATTGTAAAG
Seq A exon
GTGCTTTGTCTATTTTTTATTCTTATTTTTATATCAAATTTGTGCCAAATAGATATATTCAGTTGGGTACTTTCAACTTAAAATAGCCAAAGAAATGAATTAACTGTCTGATTACATTAAAGGCTTTAATTAGATTAATACAATCATTAAATATCTCAAAATAAGAAAAAATGTCTCAGGCTGTAGTCTATCTGGTGAATGACCACTTATGTAGTCATTTACACATAGAAAGTTGGAGTTATGTCTGTAAATTAAACAACCAAAGCACAGATTGTATTTACACACTGTAGTTACAGTTATGTTAAGTGTGTATTTGATAAAGTACCAATAAAAAGCACAGCAATCTTTTGAGAATATTTACTGAGTGTTGGTGGGATTATGGGTACATTTTTAATAAAAGTTTCAGAAAGTCATTTTCATTGTCATAAACAGTGCATATGAAATATGACTAGTAAATTAGTGTCTAGTATTCATTGAACACTTTTTACTCTATGCCAGACACTGTGCACAGCACCTGACATGCATTATTTCATTTAGTCTTCATGAGAGCCACATGAGGTTGGTGCCATGATTATCCCTGTTTTATAGATGAGGTTTCAGTAGCATGGAGAGATTTGGAACTTACCCAAAGTCACACATCTAGGAAGTACTAGAGCCAGGCTTCAAATCCAAGATCTCACTGTGTTAATCCATTCTCACACTGCTAATAAAGACATATCTGAAACTGGGTAATTTATAAAGGAAAGAGATTTAATGGACTCACAGTTTCACATGGCTGGGGAAGCCTCACAATCATGGCAGAAGGTGAAGGAGGAGCAAAGGCACATCTTACATGATGGCAGGCAAGAGAGCGTGTGCAGGAGAACTGTCCTTTATAAACCATCAGATCTCATGAGACTTATTTACTATCACAAAAACAACACAGGAAACCCCACCCCCATGATCCAATGACCTCTCACCAGGTCCCTCCCATGGCGCATGGGGATTATGGGAGCTACAATTCAACATGAGATTTGAGTGGGGACACAGCCAAACCATATCACTCACACTATTGATGACTACACTGAAAAGAAGAAAGAAATGAGAAAGCACGCACATGTATGAAGAATTAGAGAGTAAAACTAGAAGCAGAAAATAACAGTAATTCAGAATACTTCATAATATTACCAATTCGGCCCTCACCATTTCTCCAAGAAGCCATTAAAATTATCCATCACTGTTTGGATAGAAACTGAAGCAAAAAACACAAATATAATCTGGCTTAAATTACCCAGAGGTTATTGAGATAGAGGGCTGACAGTAAAAGATTGTGTCTAGGATATAGTCTTATCCTATTTCAGTGCAGCTTTCCTTACTGAGAGTGAAACAGGTTGGTTTTATAAATCTTTCTATTAAGGGAAATTTCTGCTTTCTTGGTAAAAGGCCAAAATATGACTGTGCTTGAATTAGATTTCTTTAATTTCAG
Seq C2 exon
AGGTAAACTGTAGCTCACCAGCAGATATGGATGGAATCCAGAAAGGGCTGGAACCAAGGAAAATGTATCAGTATGGAGCTGTTGTAACTCTGGAGTGTGAAGATGGGTATATGCTGGAAGGCAGTCCCCAGAGCCAGTGCCAATCGGATCACCAATGGAACCCTCCCCTGGCGGTTTGCAGATCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322-CR2:NM_001877:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.159 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCACCTCCGCCTAAGAC
R:
GGGAGGGTTCCATTGGTGATC
Band lengths:
342-1807
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)