RnoINT0081748 @ rn6
Intron Retention
Gene
ENSRNOG00000000156 | LOC100911486
Description
multiple epidermal growth factor-like domains protein 6-like [Source:RGD Symbol;Acc:6492904]
Coordinates
chr5:171568166-171568550:+
Coord C1 exon
chr5:171568166-171568294
Coord A exon
chr5:171568295-171568421
Coord C2 exon
chr5:171568422-171568550
Length
127 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
CCATTCTACGCTTCCCACAGCCT
3' ss Score
7.02
Exon sequences
Seq C1 exon
CCTGCGTCAGTGGCACGTTTGGGGTTCACTGTGAGGAACACTGTGCTTGCCGGAAAGGTGCCTCCTGCCACCATGTCACAGGGGCCTGCTTCTGTCCTCCAGGATGGAGGGGCCCACACTGTGAGCAGG
Seq A exon
GTAAGCAGAGATAACCGTTCATGGACCGTTGGGAGGGCGCTGGGAGGAAGTTGGTGCTGCATAAGCACCTCAGGGCTCCCCTCTGTTCAGTTCCCAGAAAACTCACCCCATTCTACGCTTCCCACAG
Seq C2 exon
CCTGTCCACGCGGATGGTTTGGAGAGGCCTGTGCTCAGCGTTGCCTCTGCCCACCCAATGCCTCCTGCCACCATGTCACTGGGGAGTGCCGCTGTCCACCCGGCTTTACTGGGCTTAGCTGTGAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000156:ENSRNOT00000000169:26
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:
NO
A:
NA
C2:
PF0005319=Laminin_EGF=PU(69.0=65.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGTTTGGGGTTCACTGTGA
R:
TGCTCACAGCTAAGCCCAGTA
Band lengths:
243-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]