DreINT0060132 @ danRer10
Intron Retention
Gene
ENSDARG00000098057 | dscaml1
Description
Down syndrome cell adhesion molecule like 1 [Source:ZFIN;Acc:ZDB-GENE-110601-1]
Coordinates
chr15:12172860-12173269:-
Coord C1 exon
chr15:12173180-12173269
Coord A exon
chr15:12172989-12173179
Coord C2 exon
chr15:12172860-12172988
Length
191 bp
Sequences
Splice sites
5' ss Seq
ACAGTGCAA
5' ss Score
-10.18
3' ss Seq
TCCTTTTGTTTTGTTCACAGAAC
3' ss Score
10.26
Exon sequences
Seq C1 exon
CTGAAGCCAGCAGAGCGTGGGGATTCTGTCTTTTTCTCCTGCCACGCCATCAACTCATACGGCGAGGGTCGAGGGCTCATCCAGCTGACA
Seq A exon
GTGCAAGGCAAGACAATCAGCCATGAACAACACGCTCACATCTTACATGATACTCTTTATCTAGAGACACAAAATCAATAATTTACCTCCCGGCCCCAAGCCACCGCTTACTTTTCAGCTTCTCTGCCTTTTTCTCGGTCTCAATCCTCCACTGTCTGTTTGAAGTCTATTTCCTTTTGTTTTGTTCACAG
Seq C2 exon
AACCCCCTGACCCCCCAGAGCTTGAGGTTCGAGAAGTCAAAGATCGTAGTATGAACCTAAGGTGGACGCAGAGGTTTGACGGCAACAGCATAATCACCAGCTATGACATTGAGTACAAGAACAAATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098057:ENSDART00000165159:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.283
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=PU(36.1=96.3)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGCCAGCAGAGCGTG
R:
CGGATTTGTTCTTGTACTCAATGTCA
Band lengths:
219-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]