HsaINT0041168 @ hg19
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:2336]
Coordinates
chr1:207651230-207652625:+
Coord C1 exon
chr1:207651230-207651415
Coord A exon
chr1:207651416-207652601
Coord C2 exon
chr1:207652602-207652625
Length
1186 bp
Sequences
Splice sites
5' ss Seq
CCCGTAAGT
5' ss Score
9.09
3' ss Seq
TGATTTTGTACTATTTTTAGGTT
3' ss Score
8.83
Exon sequences
Seq C1 exon
AGGTAAACTGTAGCTCACCAGCAGATATGGATGGAATCCAGAAAGGGCTGGAACCAAGGAAAATGTATCAGTATGGAGCTGTTGTAACTCTGGAGTGTGAAGATGGGTATATGCTGGAAGGCAGTCCCCAGAGCCAGTGCCAATCGGATCACCAATGGAACCCTCCCCTGGCGGTTTGCAGATCCC
Seq A exon
GTAAGTACCAAGGGCTTCACCGCCGCTTGTAACTGGCTAACGGAGAGAAGAGAGTGAGAGTTTCCCTCAGCGTGGAGAGTCCTGGGTTTTAAATTGACATAGGTTTGTGACCAGTTGTATAATTACAGAGGAACTTGAAGTCAGTGGTCTATTCTAGAAAAAGCACAGCTTGGCCAGGTCCGTGACTTCTGCCTGTGATACCAGAATTTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCCTAGGAGTTTAAAACCAGTCTGGGCAATGTAGTGAGACCTGGTCTCTACCAAAAAAAAAATAATAATAATAACCAGGCATGGAGGTGTGCACCTGTGGCCCCAGCTACTCGGGTAGCTGAGATAGGAGGATCACTTCAGCCCAGGAGGTTGAAGCTGCAGTGAACCATGATTGCACCACCGCACTCTAGCCTGGGCAACAGAGTAAGACCCTATCAAAAAAAAAAAAAAAAAAAAAAGAAAGAAAGAAATTAAATAAAATAAAAAAGAAAAAGGAAAAGAAAAAACACAACTTTCTTAGGATGGGGAAAGTGAAGAAAAGAAAATAGAAACACTAATTTAAAAGGAACAAAAATGTGAAACAAGCAACCTGAAATTTTGAAAGGAGTTGCTGCATAGACCACCCTACGTGCTGAATCTGAGTTAATAAGTGCTTACAATTTGACAGGGAACTCCAGAAATAGGTTAAATAAATAGTTGTTACAGTTAATATTTGCATTCTAACCTGAGAAATCTCTGATTATAAAGTTGAGTATATTGTTTTTGTCATTGGTGGACTCCCCCAATCTACTTAGAGTGAAAAAAAAAGGCCAGTGAGTTGCTACATAAGAAACAAGTGGATATAACTCAAGGTTCCAATACATCTTTTTTATCTGTTGTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTAAATAGACACAAGGTCTCACTATGTTGCCCAGGTTGGTCTCAAACTCCTGAGCTCAAGTGATCTTCCCACCTTGGCCTCTCAAAGTGCTAGGATTACAGGCATGTGCCACTGTGCCTGGCCCCAGTACATCTTTTAAATCGACTTGGAAGGGAGCTAGAGTGTTGATTTCTGGGACATTACCATGAAACGTGGGGCTACATTGAATTATGACACTATACTGATAATCATTTTCATGATTTTGTACTATTTTTAG
Seq C2 exon
GTTCACTTGCTCCTGTCCTTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322-CR2:NM_001877:15
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=90.5)
A:
NA
C2:
NO
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:
AGGTAAACTGTAGCTCACCAG
R:
CACAAAGGACAGGAGCAAGTGA
Band lengths:
210-1396
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)