HsaINT0031166 @ hg38
Intron Retention
Gene
ENSG00000117335 | CD46
Description
CD46 molecule [Source:HGNC Symbol;Acc:HGNC:6953]
Coordinates
chr1:207767013-207767651:+
Coord C1 exon
chr1:207767013-207767195
Coord A exon
chr1:207767196-207767606
Coord C2 exon
chr1:207767607-207767651
Length
411 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
AACATTATTTTGTTTCCTAGTGC
3' ss Score
7.08
Exon sequences
Seq C1 exon
TGGTCAAATGTCGATTTCCAGTAGTCGAAAATGGAAAACAGATATCAGGATTTGGAAAAAAATTTTACTACAAAGCAACAGTTATGTTTGAATGCGATAAGGGTTTTTACCTCGATGGCAGCGACACAATTGTCTGTGACAGTAACAGTACTTGGGATCCCCCAGTTCCAAAGTGTCTTAAAG
Seq A exon
GTACAAAGGTTATCTTTTTTCTGTCTTGGTTTGTTATTGTTGTTGCTGTTCATTTTAGACTTTATTTCTTTGATATTAACTATCAGTCATACAAAATAACTGAAAAGAAACAATTTTAGTATTTAACTCTGTCTTGTATTCATTTCTATGCCAGATGAATGACACGAAATTCACATAAAATTCTGCTGTTGTGATTTTTTGTGCTTTTCCAGGGTTCTTAGCACGTTATGTACATTGCATGGGTATATGCTTTTAATATTTTTATGTATAAAAAGTGAATTACAACAACTTTTTGGAATTGAAACATGGGCATTTTTATCTAAGTAAGTCAACAATGGCATAATTCATATAAATGAAATGAGAGCAATAACTCCCAAGTGGTTGATCTTCTAACATTATTTTGTTTCCTAG
Seq C2 exon
TGCTGCCTCCATCTAGTACAAAACCTCCAGCTTTGAGTCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117335:ENST00000358170:6
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=0.344
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.3)
A:
NA
C2:
NO
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:
TGGTCAAATGTCGATTTCCAGT
R:
TGAATGACTCAAAGCTGGAGGT
Band lengths:
227-638
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