HsaINT0052328 @ hg19
Intron Retention
Gene
ENSG00000171587 | DSCAM
Description
Down syndrome cell adhesion molecule [Source:HGNC Symbol;Acc:3039]
Coordinates
chr21:41457529-41459214:-
Coord C1 exon
chr21:41459097-41459214
Coord A exon
chr21:41457693-41459096
Coord C2 exon
chr21:41457529-41457692
Length
1404 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TTTTTCTTCCTGTGAGGCAGTAA
3' ss Score
0.5
Exon sequences
Seq C1 exon
CTCCTGCACGAATCCTGACCTTCAGTGGGACAGTGACTACTCCATGGATGAAAGACATTGTCTTGCCTTGTAAGGCTGTTGGGGACCCTTCTCCTGCAGTCAAATGGATGAAAGACAG
Seq A exon
GTAACCAGTAACCCAATGTATGCCTTCAGTGAGACTCTAAGAGATTACATCTGACATACTCAGGTTGTGTCTAGTGGTCTCCTAATTTTGTGTTTATTTATATTAGTGAAAACTCAAGGAAACCTACCAATTCTTCTGAGATGAGGGCAGAGAAGGAATCTCAGCTTTAGCACTGAAAGGGTCTGATTTATTGTATCAACCCTCTGTTAATTCAGAGCCTTCTAGTTCATGAGAGAATGCTTGCAAGGAAAGTAGTTGAACCAACTCAATTATTGTGGAAGTTTGCTGCACCCTCTCAGGTAAATTGTCCATGTAACTGAGATGAATGCAGCCAAGGCTATTGTGAGATTTAACACCTATCTCTTCTTCTTTAAAGATAGTGAACTAACCATAACTCAAATACCCTGAGAAAGAACTTTAAGAAATGGAGTACATTAGGACTTTGCTAATTTAAAATCTGGTTCTCCATACTCCATAGTAATTATTTAAATAATAGGAGCCAAGATAGAGGGAGAGAGTGAGTGAGATATGGTCTGTCCATATAACTTTTTAAAGTGCTATATCTCTATTCAGGAGAAGAAATTAGGATATAAGTTAAGGGTCGAAAATTCATTTATGAGCATAGAAATGTGATCTAATGGATTCAGAAGAATGCCTATTTTCAAGCAAAAGCACTTAGAAGGCATAAACTGTAGAAATAATGGCTTGGTGTAGTGACCAAACTGTAGAAATAATGGTTTGGTTTAGTGACCACTTTTCTCATACATTTAAAGTTGGTTCATCCAAATGAAATATGTAGCTCCCAAGGTCAAGTTGGCATTCTGCCTGTTGTGGGAATGACCCCAAAGGACTGGACAATCTGCCACCGGAGCAGTGGTTATGATGGCCACGCAGTTCTTTTTATACTAGGGTAAACTCATCACCCTCTTGAGATATCACATGTCATTTTTCATGTCAAAATCATGAATAATTGTGACTTTAAGTGAATCTAAAAATGATCCCAAGGTTTAGTTTCCCCTGTATGATTTGTTCAAACTGGCACTTCTGCCTACAGAAGAAATTCCCAGAATTGCCAAAATGAGGATATCTCCAGTGCCCACAGAGTGGAGTAAAGAGGGACCCATCAGTCTCTGGCACAGATGAGGAGTCCACTGACTTGAGCCAGAATCTGGGCCCTTGACACAGATCTCATCTTCAACGTAACATTTTTTACAAAGGAAAACTTCAGCTACACAGCTATTGATTGTTTTCATTATGTAATCATATTTAGTTCTTTCATAATGCAAGAAATATGAAGCTTCCAAATGTGTGGTTTGCTTCACAGAGTCTTTCTGTTTTTCCCCAACCTCAGCTAATTTGGATTGTAATTTCTTTAATCTGTGCATTTTTCTTCCTGTGAGGCAG
Seq C2 exon
TAACGGGACACCCAGTCTAGTAACGATTGATGGGCGGAGGAGCATCTTTAGCAACGGAAGCTTCATTATTCGCACGGTGAAAGCAGAAGACTCCGGCTATTACAGCTGCATTGCCAATAACAACTGGGGATCTGATGAAATTATTTTAAACTTACAAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171587-DSCAM:NM_001389:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.0=90.0)
A:
NA
C2:
PF0767911=I-set=PD(58.9=94.6)
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:
CTCCTGCACGAATCCTGACCT
R:
ATAATTTCATCAGATCCCCAGTTGT
Band lengths:
262-1666
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)