DreINT0095023 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21219451-21219928:-
Coord C1 exon
chr23:21219797-21219928
Coord A exon
chr23:21219580-21219796
Coord C2 exon
chr23:21219451-21219579
Length
217 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAA
5' ss Score
2.05
3' ss Seq
TTCTGTTCTATATCTCTTAGTCT
3' ss Score
7.26
Exon sequences
Seq C1 exon
AGTGTGAAGAGGGCCGTTGGGGTCTTGGCTGTGCAGAATCATGTCCTTCCTGTGACAATGGTGGAGTATGTGATAGACAAAACGGCACCTGTGTTTGTTCGCCGGGATTCATGGGAAATCTCTGTCAGAATG
Seq A exon
GTATAAAACTTAATCTTTCATTTTCTGTTATCTTAATTCATCATTGATCCTCTGTTCAGTACCAGACATCTGTCCTGAGTTTGTGGTTTTGTGTCACACTCTGTAAGAGGAAACATCTGTTGCATATTTCTGTTGTTCAGATGTCAGTTTTGCTTGCTTTTTAACTTATCTGTTGATATAACTGACACAGAGGCAAATTCTGTTCTATATCTCTTAG
Seq C2 exon
TCTGTCCAGATGGGCACTTTGGCCTGAGCTGCCTGTTGCGCTGCTCCTGTCAAAACGAAGGGAAATGCCACCATGTGACTGGCCTCTGTGTTTGTAAAGATGGCTGGATGGGACCCAACTGCGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:16
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:
PF079748=EGF_2=WD(100=71.1)
A:
NA
C2:
PF079748=EGF_2=WD(100=61.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGAAGAGGGCCGTTGG
R:
CTTTTGCGCAGTTGGGTCCC
Band lengths:
260-477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]