DreINT0095040 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21195520-21195818:-
Coord C1 exon
chr23:21195730-21195818
Coord A exon
chr23:21195649-21195729
Coord C2 exon
chr23:21195520-21195648
Length
81 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
CTTTTTTCTGCATGCATCAGGCT
3' ss Score
4.39
Exon sequences
Seq C1 exon
ATGTGACTGTGATGGAGACACCCCATGTGACCCTATTAATGGCAGGTGTTTGTGTGCACCTGGAAAAACAGGCTCTCGCTGTGACATAG
Seq A exon
GTCAGTCTTCCTCCAGATGTCTTACAGTTGAGCTTTTCCTCAGTCACACAGTCAATCTGTTCTTTTTTCTGCATGCATCAG
Seq C2 exon
GCTGTGGAGTGAACCGATTTGGACCCGACTGCTCACAGAGATGTGAATGTCTGAACGGAGGTCAGTGTGATCCCCGAAACGGCCGATGCACGTGTCTGAACGGCTGGATCGGGCCCAGCTGTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(30.2=29.5)
A:
NA
C2:
PF079748=EGF_2=WD(100=70.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGCAGGTGTTTGTGTGCA
R:
CTTGTTGACAGCTGGGCCC
Band lengths:
181-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]