DreINT0095004 @ danRer10
Intron Retention
Gene
ENSDARG00000062686 | megf11
Description
multiple EGF-like-domains 11 [Source:ZFIN;Acc:ZDB-GENE-060503-252]
Coordinates
chr18:19178784-19179300:-
Coord C1 exon
chr18:19179172-19179300
Coord A exon
chr18:19178913-19179171
Coord C2 exon
chr18:19178784-19178912
Length
259 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
TTGTATGTGTTTTTGTTCAGAGT
3' ss Score
8.35
Exon sequences
Seq C1 exon
GCTGTCCCTCAGGGTTTTATGGGCGAGACTGTGCAGAGGTGTGCCGCTGTCAAAATGGAGCTGACTGTGATCATATCACTGGCCAGTGTGCCTGTCGGACTGGCTTTATTGGGACCAACTGTGAACAGA
Seq A exon
GTGAGTGTTGTAGACTTTTTAAGATTGTGGGTCTTGTATCATGGGGTTGTGAGAATGTCAAGTAGAAAGAGACATTTAGCTGCCCCGATGATGATGATGATGATGATTGTGGTGGTAATTGATGATGTTTGTGTGTGAGTGCTGTCCCCATCCACCATCTCACAACATGTGTCTGAGTGCTTGTTTTACACGGTGTTACACAGGCCAGGGGCGTTTGGTTAATTGTGTGTTTTTCTTTTTTGTATGTGTTTTTGTTCAG
Seq C2 exon
AGTGTCCTCCCGGGACATTTGGCTATGGCTGTCAGCAGCTGTGTGAATGTATGAACAACGCCACCTGCGACTATGTGACTGGAACCTGCTACTGCAGCCCGGGATACAAAGGCATCCGCTGTGACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062686:ENSDART00000147902:16
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(70.2=75.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(27.7=29.5),PF0005319=Laminin_EGF=PU(82.9=65.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTCCCTCAGGGTTTTATGG
R:
GTCACAGCGGATGCCTTTGTA
Band lengths:
254-513
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]