HsaINT0145358 @ hg19
Intron Retention
Gene
ENSG00000171222 | SCAND1
Description
SCAN domain containing 1 [Source:HGNC Symbol;Acc:10566]
Coordinates
chr20:34541546-34542428:-
Coord C1 exon
chr20:34542370-34542428
Coord A exon
chr20:34542262-34542369
Coord C2 exon
chr20:34541546-34542261
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTCACCCCACCCCCGCGCAGACG
3' ss Score
7.36
Exon sequences
Seq C1 exon
GGACGCAGAGAAGCCAGAGACTTTCGCTTCCGGCTGCCGCAGGCGCTTCGCTGGTGCAG
Seq A exon
GTAAGCTCCGCACACTCTCGGCCGGTCCCGAGTCCGACTCCCTCAAGGGTGACGCGAGCTCTGCCCTTTAACCGGAAACGTCTCCCTGCTCACCCCACCCCCGCGCAG
Seq C2 exon
ACGCAGTGCTGAGCACACAGCTACCGGACAAAGAGTGACGCCCGGAGCTGGAGTTATGGCGGCTACGGAGCCGATCTTGGCGGCCACTGGGAGTCCCGCGGCGGTGCCACCGGAGAAACTGGAAGGAGCCGGTTCGAGCTCAGCCCCTGAGCGTAACTGTGTGGGCTCCTCGCTGCCAGAGGCCTCACCGCCTGCCCCTGAGCCTTCCAGTCCCAACGCCGCGGTCCCTGAAGCCATCCCTACGCCCCGAGCTGCGGCCTCCGCGGCCCTGGAGCTGCCTCTCGGGCCCGCACCCGTGAGCGTAGCGCCTCAGGCCGAAGCTGAAGCGCGCTCCACACCAGGCCCCGCCGGCTCTAGACTCGGTCCCGAGACGTTCCGCCAGCGTTTCCGGCAGTTCCGCTACCAGGATGCGGCGGGTCCCCGGGAGGCTTTCCGGCAGCTGCGGGAGCTGTCCCGCCAGTGGCTGCGGCCTGACATCCGCACCAAGGAGCAGATCGTGGAGATGCTGGTGCAAGAGCAGCTGCTCGCCATCCTGCCCGAGGCGGCTCGGGCCCGGCGGATCCGCCGCCGCACGGATGTGCGCATCACTGGCTGAGCGGTGGAGCTGCGGGCGGCCAGGGCCGGGCGCTCTGTGCGGACTGGGGCCATGATCGGGCCCGGGGGCCTGAGCCTGGGACCCCACCCCGTGTTAATGAAAAATGAGTTTTGGCAGCGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171222-SCAND1:NM_033630:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=WD(100=40.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
GAGACTTTCGCTTCCGGCTG
R:
TGGGACTGGAAGGCTCAGG
Band lengths:
258-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)