DreINT0094978 @ danRer10
Intron Retention
Gene
ENSDARG00000017229 | megf10
Description
multiple EGF-like-domains 10 [Source:ZFIN;Acc:ZDB-GENE-080506-1]
Coordinates
chr10:16183208-16183598:+
Coord C1 exon
chr10:16183208-16183354
Coord A exon
chr10:16183355-16183465
Coord C2 exon
chr10:16183466-16183598
Length
111 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTCTCTTGATGTCTTCCCAGTCT
3' ss Score
6
Exon sequences
Seq C1 exon
GCATTCATTGTGACAGTGTGTGTGCTGAGGGCCGCTGGGGGCCAAACTGCTCTCTGTCCTGTAACTGTAAAAACAGTGCGTCTTGCTCACCTGATGAAGGTGCATGCGAGTGTGCACCTGGATTCAGAGGAACCACCTGCCAACACA
Seq A exon
GTGAGTAGTCAAACAGATTGTGTGTTTGTGTTCATATGTCTGTCTCTTTTGACGACATGTCTGTTTTCTCATTTCTCCTTTACTCCTGGTGTTCTCTTGATGTCTTCCCAG
Seq C2 exon
TCTGTTCTCCGGGTGTCTTTGGCCACCGCTGTAGCCAGGCATGTCCACACTGTGTCCACAGCAATGGCCCCTGTCACCATGTGACCGGCCAGTGTGAATGTCTACCTGGTTTTAAAGGGGCACTCTGCAACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017229:ENSDART00000043936:14
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:
PF126612=hEGF=PD(23.1=6.0),PF0005319=Laminin_EGF=PU(61.7=58.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(36.2=37.8),PF126612=hEGF=WD(100=28.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGACAGTGTGTGTGCTGAG
R:
GTAGACATTCACACTGGCCGG
Band lengths:
244-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]