Special

DreINT0062598 @ danRer10

Intron Retention

Gene
ENSDARG00000011445 | elmsan1a
Description
ELM2 and Myb/SANT-like domain containing 1a [Source:ZFIN;Acc:ZDB-GENE-041001-151]
Coordinates
chr20:25990907-25991234:-
Coord C1 exon
chr20:25991146-25991234
Coord A exon
chr20:25991030-25991145
Coord C2 exon
chr20:25990907-25991029
Length
116 bp
Sequences
Splice sites
5' ss Seq
CTGGTATAC
5' ss Score
2.34
3' ss Seq
TGTGTGTCTGTTTTTGCCAGGTG
3' ss Score
10.66
Exon sequences
Seq C1 exon
GATCAGACTATTGGAGTGCAGATGAAAAACGATACTTCAACAAGGGAATTTCTGCTTATACAAAAGATTTCTTCATGGTGCAAAAACTG
Seq A exon
GTATACAGCTTTTATATCTTTGGTCTAATGTTGTTCATACTGTACATGACTCGCCTAAATCATGTTTTCCATTTTTAAAGATTGTGTGTTTCTCTTTGTGTGTCTGTTTTTGCCAG
Seq C2 exon
GTGAGGACTAAAACTGTGGCACAGTGTGTGGAGTTCTACTACACCTATAAGAAACAAGCGAGGGTTACTCGTAATGGGACATGTACATATGGACCTTCAGATCCAGAAGAAAGCATCCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011445:ENSDART00000142611:9
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=0.378
Domain overlap (PFAM):

C1:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(34.8=39.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGACTATTGGAGTGCAGATGA
R:
CACAGGGATGCTTTCTTCTGGA
Band lengths:
210-326
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]