RnoINT0095770 @ rn6
Intron Retention
Gene
ENSRNOG00000056817 | Muc6
Description
mucin 6, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:628826]
Coordinates
chr1:214621637-214622101:-
Coord C1 exon
chr1:214621950-214622101
Coord A exon
chr1:214621779-214621949
Coord C2 exon
chr1:214621637-214621778
Length
171 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TCTCACTGCCATCTCCCCAGCAC
3' ss Score
7.14
Exon sequences
Seq C1 exon
GTACCCACCAAGTGCGAATCCGGCTGCGTCTGTCCTAAGGGACTCTATGAAAACAGTGACGGGCAGTGTGTGCCCGCAGAGGAATGCCCATGTGACTATGCAGGGACATCCTACCCTGGTGGTTCTGAGCTCCATACAGACTGTAAGACCTG
Seq A exon
GTAGGTCATGAACACCCAGACCCCTAGGGTCATCTGGGCAGGTGAAGACTCCCAAAAGTAAGTTGTCCCAGGGTAGGGCTCCCAGAGGTGGGGAATCCTAGGGTCACAGCCCAGTCCATCTCCCTGTGTGGAAAGACCATGTCTAACCATTTCTCACTGCCATCTCCCCAG
Seq C2 exon
CACCTGCTCGCAGGGAAGGTGGACCTGCCAGCTTAGCACCCAGTGTCCATCCACCTGTGTCCTCTACGGCGAAGGCCACATCATAACTTTTGATGGACAACGCTTTGTGTTTGACGGCAACTGCGAATACACGCTGGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056817:ENSRNOT00000087497:21
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:
PF0182612=TIL=PD(43.8=54.9),PF0009313=VWC=PU(32.3=39.2)
A:
NA
C2:
PF0009313=VWC=PD(66.1=85.4),PF0009420=VWD=PU(18.4=58.3)
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:
GCTGCGTCTGTCCTAAGGGA
R:
GCAGTTGCCGTCAAACACAAA
Band lengths:
254-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]