DreINT0062595 @ danRer10
Intron Retention
Gene
ENSDARG00000011445 | elmsan1a
Description
ELM2 and Myb/SANT-like domain containing 1a [Source:ZFIN;Acc:ZDB-GENE-041001-151]
Coordinates
chr20:25992583-25992920:-
Coord C1 exon
chr20:25992790-25992920
Coord A exon
chr20:25992687-25992789
Coord C2 exon
chr20:25992583-25992686
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
TTGTTTTTTTGTTTTTGCAGTTG
3' ss Score
10.15
Exon sequences
Seq C1 exon
GCACATAAACATCGGCTCAAAGTACCAAGCAGAGATTCCTGAACTCTTGGATCGTTCATCAGCCTTAAAGGACCAGCATAAAGCCACTTTAGTTTGGCAGCCTGAGTCCTCTGCCTCCCAAGAAACAAGAG
Seq A exon
GTAACTTGACTTTAGACTGCATTGACTACATCTGAAATATCACATATACCATTTATATATTCACATTCTTCAATTACAATGTTTTGTTTTTTTGTTTTTGCAG
Seq C2 exon
TTGATAATCTGATGAACCTGGTCTGTTCCAGTGTAATGTATGGGGGAGGGACAAACACAGAGCTCGCAATGCACTGCCTGCATGAGTGCAAAGGTGATGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011445:ENSDART00000142611:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(77.8=93.3)
A:
NA
C2:
PF0144819=ELM2=PD(20.4=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACATAAACATCGGCTCAAAGT
R:
CATGACATCACCTTTGCACTCA
Band lengths:
235-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]