RnoINT0095775 @ rn6
Intron Retention
Gene
ENSRNOG00000056817 | Muc6
Description
mucin 6, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:628826]
Coordinates
chr1:214619134-214619659:-
Coord C1 exon
chr1:214619503-214619659
Coord A exon
chr1:214619275-214619502
Coord C2 exon
chr1:214619134-214619274
Length
228 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
ATGTGCGTCCTTCCTCCCAGCCA
3' ss Score
8.09
Exon sequences
Seq C1 exon
GTATACCACCTGCCCTACTATGAGGCCTGCGTGCATGATGCCTGTGGGTGCGACACAGGCGGGGACTGCGAGTGTCTGTGTGATGCAGTGGCTGCCTATGCCAAGGCCTGTCTGGACAAGGGCGTGTGTGTGGACTGGAGGACCCCAGACTTCTGCC
Seq A exon
GTGAGTGTCTCACCCCATGCCCAAACCTGCTCCACCCAGGGGCTTACCCCAGAAGCCTTCTCTCCAGGTAGGCACCAGGCTGTACCCCTGCAAGGCAACCTTGGGTCACCAGCGGTTCCCCAGGCTCTCCCCTCCCAGACCCACCAAGAGGAAGCCTCCAACAGACCCCAAGCCCTTCATGTTGGCATGTAGGCCTTGGTGCCAGCTGATGTGCGTCCTTCCTCCCAG
Seq C2 exon
CCATCTACTGTGACTTCTACAACACCCACACACTGGTGGGTGACAATGGATACCAGATAGCTCAGCACAACTGCACGTGGCACTACCAGCCCTGTCTCTGCCCTGGCAGCCTGGGAAGCTTCCCGGATACAAACACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056817:ENSRNOT00000087497:26
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:
PF087426=C8=FE(69.3=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACCTGCCCTACTATGAGG
R:
TCAGTGTTTGTATCCGGGAAGC
Band lengths:
292-520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]