HsaINT0041174 @ hg38
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement C3d receptor 2 [Source:HGNC Symbol;Acc:HGNC:2336]
Coordinates
chr1:207468800-207469232:+
Coord C1 exon
chr1:207468800-207468899
Coord A exon
chr1:207468900-207469149
Coord C2 exon
chr1:207469150-207469232
Length
250 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGACAACCTTCTGTCTCCAGGTA
3' ss Score
10.36
Exon sequences
Seq C1 exon
AGGCACGCTGTAAATCTCTAGGACGATTTCCCAATGGGAAGGTAAAGGAGCCTCCAATTCTCCGGGTTGGTGTAACTGCAAACTTTTTCTGTGATGAAGG
Seq A exon
GTGAGTGTCAGGATTATTTATGAGATTTAATTCATTTGTCTTGTGTGTGCGTGGTGTGGACTGTGAAACCTGCAGAAGTCTCCTCTGTGAGGATCTCTGGGCAGTCTGGGGTAGGGTTGTGAGAGGTAATGCTGATAAAAGGAACAGATGCACACTGATTGAAATGAACTTGTCTTGAATTGTAAGTAGAGGCTGCTGTTCTTCAGCACAAACTGCCTAATAGTTCTGAATGACAACCTTCTGTCTCCAG
Seq C2 exon
GTATCGACTGCAAGGCCCACCTTCTAGTCGGTGTGTAATTGCTGGACAGGGAGTTGCTTGGACCAAAATGCCAGTATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322:ENST00000367058:4
Average complexity
IR
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(52.6=88.2)
A:
NA
C2:
PF0008415=Sushi=PD(45.6=89.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACGCTGTAAATCTCTAGGAC
R:
TCACATACTGGCATTTTGGTCCA
Band lengths:
180-430
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