RnoINT0053393 @ rn6
Intron Retention
Gene
ENSRNOG00000019388 | Egfl7
Description
EGF-like-domain, multiple 7 [Source:RGD Symbol;Acc:708507]
Coordinates
chr3:4041763-4042175:+
Coord C1 exon
chr3:4041763-4041858
Coord A exon
chr3:4041859-4042010
Coord C2 exon
chr3:4042011-4042175
Length
152 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
GACACCTTCGTTTCTTACAGATG
3' ss Score
10.63
Exon sequences
Seq C1 exon
CAATATGCCAGCCACCGTGTGGGAATGAAGGGAGTTGCATCCGCCCAGGCCGCTGCCGCTGCCCTGTGGGATGGCAGGGAGATACTTGCCAGATAG
Seq A exon
GTAAGCCTCACTCTTCTTGAAGGGTCTTCTTGGTGTCTTGTGTATCCTAGGTTACTGCCGGCTGAAGCAGGTTCTCACCGATAGGTGGATCTGAACAGGGCTCTGTGGTCAGGACCTTGGCTTCTGTAGAGTGACACCTTCGTTTCTTACAG
Seq C2 exon
ATGTTGATGAATGCAGTACAGGAGAGGCCAGGTGTCCCCAGCGCTGTGTCAATACTGTGGGAAGTTACTGGTGCCAGTGTTGGGAGGGGCAGAGCCCATCTGCAGATGGGGTGCTCTGCCTGCCTAAGGAGGGGCCCTCCCCGGTGGCACCAAGTCCCACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019388:ENSRNOT00000026318:6
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=0.161
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=84.8),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGAATGAAGGGAGTTGCA
R:
CTGGCGTGGGACTTGGTG
Band lengths:
243-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]