RnoINT0081743 @ rn6
Intron Retention
Gene
ENSRNOG00000000156 | LOC100911486
Description
multiple epidermal growth factor-like domains protein 6-like [Source:RGD Symbol;Acc:6492904]
Coordinates
chr5:171566114-171566441:+
Coord C1 exon
chr5:171566114-171566242
Coord A exon
chr5:171566243-171566312
Coord C2 exon
chr5:171566313-171566441
Length
70 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
ATTGCCACCTCTGTCTGTAGCCT
3' ss Score
7.14
Exon sequences
Seq C1 exon
CGTGTCGCCAGGGATACTATGGGCCCAGCTGTGAGCAGAAGTGCAGATGTGAGCATGGGGCTGCCTGTGACCATGTCAGTGGGGCCTGTACCTGCCCAGCCGGCTGGAGGGGAAGCTTCTGTGAACATG
Seq A exon
GTAAGCTGAGTGCAGGCTGGGCAAGGATCTCTGGCTCTGAGCCTCTTGTGATTGCCACCTCTGTCTGTAG
Seq C2 exon
CCTGTCCTGCTGGCTTCTTTGGGTTAGACTGTGACAGTGCCTGCAACTGCTCTGCCGGGGCACCCTGTGATGCTGTCACCGGCTCATGCATCTGCCCAGCTGGCCGCTGGGGCCCACGCTGTGCCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000156:ENSRNOT00000000169:21
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:
PF0005319=Laminin_EGF=PD(34.0=36.4)
A:
NA
C2:
NO
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:
TGTCGCCAGGGATACTATGGG
R:
GGCACTGTCACAGTCTAACCC
Band lengths:
168-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]