HsaINT0052350 @ hg19
Intron Retention
Gene
ENSG00000177103 | DSCAML1
Description
Down syndrome cell adhesion molecule like 1 [Source:HGNC Symbol;Acc:14656]
Coordinates
chr11:117351158-117351985:-
Coord C1 exon
chr11:117351889-117351985
Coord A exon
chr11:117351287-117351888
Coord C2 exon
chr11:117351158-117351286
Length
602 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
CCTCCACTGCCGCACCCTAGAGC
3' ss Score
6.56
Exon sequences
Seq C1 exon
CTCAAGCCCGCTGACCGTGGGGACTCTGTGTTCTTCAGCTGCCATGCCATCAACTCGTATGGGGAGGACCGGGGCTTGATCCAACTCACTGTGCAAG
Seq A exon
GTACCTTCACCTGCCCCACCCTTCCCATCCCACCTCCCCAGGGCCCAGGGGCCCACCGCTAACTCCACCTCAAAGAGCAGGGGCCACAGCCTACGCCATGGTGGAGGATGACAGGAAACTGCCTTCTGGGGAAAAGCCTCCCTCCACCTGCCCTCCTGCCCAGAGTAGGGAAATAAGACCTTTCCAGGAACTTAAACAGCAAAAGTTTGCAATGGCTACAGCCGCTATAGATTCCACTGACCCTTCTGGGGAGGGGTGGGGGAGTCAGGTTCCTGGGTCCAGGCCCCTGCAGCAGGTGTGGGAAGGGAAAGTCAAGCTGGGGAAGTTGGAAGGGGAAAAATGCCGTCAGCTAACAGGAATCCCTGCAGAAGAGTCAGCCCTCTCCCAGGCCAAGAACAAGATGGCAGCAAGACAGGAGAGCAAGCCAGGCCTCCTCAGCCTCCAAGCCTGGCTGCTGGCCTCCTCCAGCCCCCACCCTGCTCAAACCCTAGGGTGCCAGAGTCCTTGGCTAGACCCAGGTGATGCCAATCCTCAGGGCCAAGCAGGAGGCCAAGCTCCCTGCTGCCCTCCTCACTTCCCTCCCCTCCACTGCCGCACCCTAG
Seq C2 exon
AGCCCCCCGACCCCCCAGAGCTGGAGATCCGGGAGGTGAAGGCCCGGAGCATGAACCTGCGCTGGACCCAGCGATTCGACGGGAACAGCATCATCACGGGCTTCGACATTGAATACAAGAACAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177103-DSCAML1:NM_020693:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.273
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.2=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAGCCCGCTGACCGT
R:
TTTGTTCTTGTATTCAATGTCGAAGC
Band lengths:
222-824
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)