HsaINT0041179 @ hg38
Intron Retention
Gene
ENSG00000117322 | CR2
Description
complement C3d receptor 2 [Source:HGNC Symbol;Acc:HGNC:2336]
Coordinates
chr1:207471423-207473179:+
Coord C1 exon
chr1:207471423-207471499
Coord A exon
chr1:207471500-207472771
Coord C2 exon
chr1:207472772-207473179
Length
1272 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTATCTTTTCATCTCTCTAGAAA
3' ss Score
9.5
Exon sequences
Seq C1 exon
GTACAAGTTAAGTGGGAGTGTTTATCAGGAGTGTCAAGGCACAATTCCTTGGTTTATGGAGATTCGTCTTTGTAAAG
Seq A exon
GTGAGTAGCAAAAATGATATAGGAGCTGAAATAATGTGAGATCTATACATTTCCTGGGAGATTTTTGTTTTGGGACATGTTATGAGAATTAGAGTATTAGATTCTGTTCTATTGATTCTGCCAATAGTTATGGTTGCACAGTTTTACCATGTCTTTCTTTTGCTACCTTTTTCTTCATCAATAACTTAAATCTACTTTGTTACTGATTCTATTTTGTGGTTTACGATTATGGGAATAATGACAGCGGTGAGTATATGAGCCACCATCTTAATTTTGGGTATACCACAGTTTAGTGGAGAGAGTAAGGGATAGGTGTCAGATCTGAATTCACATTCTGTCTCTACTGCTTACTAGTGTGAGACCTTGGACCACTTGTACAACTCCTCTGAAACTCTAGCCTTTCTTCTGTAAAGTTGGCATAAGACTACAGACTAGGAGGTCCAGAGAATGTAAATAAAAAGTAAAAAGGACCAGGCACAGTGGCTCACGCCTATAATCCCAGCACTTCAGGAGGCTGAGGGCGGCAGATCACAAGGTCAGGAGATCAAGACCATCCTGGCTAACATGGTAAAACCCCATCTCTACTAAAAATACAAAAAATTAGCTGTGTGTGGTGGCATGCATCTGTGGTCCTAACTACTTGGGAGACTGAGGCAGGAGAATCACTTGAACCCGGGAGGCGGAGATTGCAGTGAGCTGAGATCACACCACTGCACTCCAGCCTAGGCAACAGCGTGAGACTCCATCTCAAAAAAAAAAGTAAAAAGAAACGTAGAAAATTTAAAAAACACTACAGACTTCAAATTATTCAAATTAAATTGTACTATTGCTACTTTCTGGATGAGGAAACTGCCTATCACAAAGTAGGTGCTCATTCAACAATAAGTTTTCTCAGCTAGCCATATAAACCATCATATCACCTCAGCACAGAGTAACCAAGAAAGCATAATTCTATTACCCTGTGTCTTTTATTCTCCTATTGCCTAATTAAAAAGAATTCTTCTTTTAATTAGCAATTTACTACTGGGCCTAACTAACTCCTAATGTGATGTTGATCAACCACATTCACTTTGAATAAAGATTTTCTTTCCTATGAAATGTGTTTAAATTGCATTTTACATACTTAATGAGCTTTCACACAACTCACATCATGAAAATGTACCCATACCGTCCAGGAAACAACAGATTCATAACCAGCTTCATTTGGTGGTTCTTTGTTCTTTGGTGTCTAATACAGGAACTCAATTCTACAGTATCTTTTCATCTCTCTAG
Seq C2 exon
AAATCACCTGCCCACCACCCCCTGTTATCTACAATGGGGCACACACCGGGAGTTCCTTAGAAGATTTTCCATATGGAACCACGGTCACTTACACATGTAACCCTGGGCCAGAAAGAGGAGTGGAATTCAGCCTCATTGGAGAGAGCACCATCCGTTGTACAAGCAATGATCAAGAAAGAGGCACCTGGAGTGGCCCTGCTCCCCTGTGTAAACTTTCCCTCCTTGCTGTCCAGTGCTCACATGTCCATATTGCAAATGGATACAAGATATCTGGCAAGGAAGCCCCATATTTCTACAATGACACTGTGACATTCAAGTGTTATAGTGGATTTACTTTGAAGGGCAGTAGTCAGATTCGTTGCAAAGCTGATAACACCTGGGATCCTGAAATACCAGTTTGTGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117322:ENST00000367058:9
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=0.011
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008415=Sushi=WD(100=48.9),PF0008415=Sushi=WD(100=40.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GGAGTGTCAAGGCACAATTCCT
R:
AGAAATATGGGGCTTCCTTGC
Band lengths:
344-1616
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