DreINT0095025 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21217815-21218153:-
Coord C1 exon
chr23:21218022-21218153
Coord A exon
chr23:21217944-21218021
Coord C2 exon
chr23:21217815-21217943
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGA
5' ss Score
3.87
3' ss Seq
GCTTTCCTTCTGTTTTCCAGAGT
3' ss Score
8.98
Exon sequences
Seq C1 exon
CTTGTGTGGCTGGACGATGGGGGCCGAACTGTGCCAACCAGTGTGACTGCAGGAGCAGCGTGGGCAGCTGTGACCCTGTGATTGGCCTGTGTCATTGTGAAGCGGGCTACATGGGACCACGCTGTGATCAAA
Seq A exon
GTATGAGCAAAGCATTACTGTTTCTGTCAGGGAGCACAAATCTAGCTTTTTCCCTCATGCTTTCCTTCTGTTTTCCAG
Seq C2 exon
AGTGTCCTCAGGGTTTCTTCGGCCAGAGCTGCCAGCACAGATGCCAGTGTGAGAATGGCGCAGTGTGTGAGCATGTGAGCGGTGCCTGCACTTGTTTGGCTGGCTGGACTGGGACGTATTGTGAAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:18
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=PU(64.6=68.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(33.3=36.4),PF126612=hEGF=WD(100=29.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCATTGTGAAGCGGGCTA
R:
CACAATACGTCCCAGTCCAGC
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]