HsaINT0031162 @ hg38
Intron Retention
Gene
ENSG00000117335 | CD46
Description
CD46 molecule [Source:HGNC Symbol;Acc:HGNC:6953]
Coordinates
chr1:207757014-207757642:+
Coord C1 exon
chr1:207757014-207757202
Coord A exon
chr1:207757203-207757539
Coord C2 exon
chr1:207757540-207757642
Length
337 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
TCAAAATTATTTTCTTTCAGGAG
3' ss Score
8.5
Exon sequences
Seq C1 exon
ATGCCTGTGAGGAGCCACCAACATTTGAAGCTATGGAGCTCATTGGTAAACCAAAACCCTACTATGAGATTGGTGAACGAGTAGATTATAAGTGTAAAAAAGGATACTTCTATATACCTCCTCTTGCCACCCATACTATTTGTGATCGGAATCATACATGGCTACCTGTCTCAGATGACGCCTGTTATA
Seq A exon
GTAAGTAAACAAACCTCTTTTTTTTTTCTGCTTGCTCTAGAGATTTGCATACATTTTGGGGTACATATTCCACTACGGTGATGATGATTTTCTTCTTGTAAAATGAGGTTCAAGATAACAATGCATTTTTGCAAGCTTTGAGAAATCAAAATCTCCAAGAAATCATTTTCCTGGCAATAGATTGCCTGGGTGAATATGAATCTTAAGTTTGCCCTTATAATAAGTAAATAATGAAAATTATATTCCCACCCATTCAAAAGAGCACTGCAGAATTTTGATTTTGATTCAGATCTGTTTTATAACTGGATTGAAAACTATCAAAATTATTTTCTTTCAG
Seq C2 exon
GAGAAACATGTCCATATATACGGGATCCTTTAAATGGCCAAGCAGTCCCTGCAAATGGGACTTACGAGTTTGGTTATCAGATGCACTTTATTTGTAATGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117335:ENST00000358170:2
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=WD(100=93.8)
A:
NA
C2:
PF0008415=Sushi=PU(52.5=88.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
CTGTGAGGAGCCACCAACATT
R:
CCCTCATTACAAATAAAGTGCATCTG
Band lengths:
288-625
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