RnoINT0095771 @ rn6
Intron Retention
Gene
ENSRNOG00000056817 | Muc6
Description
mucin 6, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:628826]
Coordinates
chr1:214621442-214621778:-
Coord C1 exon
chr1:214621637-214621778
Coord A exon
chr1:214621553-214621636
Coord C2 exon
chr1:214621442-214621552
Length
84 bp
Sequences
Splice sites
5' ss Seq
ACGGTAACC
5' ss Score
6.62
3' ss Seq
TCAACACCCTCTTCCTGCAGGAT
3' ss Score
10.83
Exon sequences
Seq C1 exon
CACCTGCTCGCAGGGAAGGTGGACCTGCCAGCTTAGCACCCAGTGTCCATCCACCTGTGTCCTCTACGGCGAAGGCCACATCATAACTTTTGATGGACAACGCTTTGTGTTTGACGGCAACTGCGAATACACGCTGGCCACG
Seq A exon
GTAACCATTGAGCCCGGGGCCAAAGGCTAACAGGAACCAGAGTGGGGACCATGAGGGCTTCTCCTCAACACCCTCTTCCTGCAG
Seq C2 exon
GATGACTGTGGTGCCAACAGCTCACAGCCTACCTTCAAGGTCCTGACAGAGAACGTCATCTGTGGGAAGTCGGGGGTCACCTGCTCCAGAGCCATCAAGATCTCCCTAGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056817:ENSRNOT00000087497:22
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:
PF0009313=VWC=PD(66.1=85.4),PF0009420=VWD=PU(18.4=58.3)
A:
NA
C2:
PF0009420=VWD=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAGCACCCAGTGTCCATC
R:
TGACGTTCTCTGTCAGGACCT
Band lengths:
170-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]