RnoINT0081740 @ rn6
Intron Retention
Gene
ENSRNOG00000000156 | LOC100911486
Description
multiple epidermal growth factor-like domains protein 6-like [Source:RGD Symbol;Acc:6492904]
Coordinates
chr5:171564728-171565100:+
Coord C1 exon
chr5:171564728-171564856
Coord A exon
chr5:171564857-171564968
Coord C2 exon
chr5:171564969-171565100
Length
112 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GATGCTGGTCTCTGTTGCAGCCT
3' ss Score
8.24
Exon sequences
Seq C1 exon
CTTGCTCAGCAGGCTGGTACGGGACTGGCTGCCAGATAAGGTGTGCTTGTGCCAACGATGGGCATTGTGACCCAACCACCGGACGCTGTAGCTGTGCCCCCGGGTGGACTGGCCTCAGCTGCCAGAGAG
Seq A exon
GTATGTAGGTCCTTTGTCCACTGATCCCGACCTCCTTGACCCTATTCCCCGATGCCCTGTGTTCTGACGTGGCTGTGCAGATTGCACAGGGTGATGCTGGTCTCTGTTGCAG
Seq C2 exon
CCTGTGACAGTGGACACTGGGGGCCCGACTGCATCCACCCTTGCAACTGCAGTGCGGGCCATGGGAATTGTGACGCCGTCAGTGGCCTCTGCCTGTGTGAGGCCGGCTATGAAGGTCCACGGTGTGAGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000156:ENSRNOT00000000169:19
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(23.9=25.0),PF0005319=Laminin_EGF=PU(69.0=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(28.6=26.7),PF0005319=Laminin_EGF=PU(63.8=66.7)
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:
CTTGCTCAGCAGGCTGGTAC
R:
CACACCGTGGACCTTCATAGC
Band lengths:
255-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]