RnoINT0095772 @ rn6
Intron Retention
Gene
ENSRNOG00000056817 | Muc6
Description
mucin 6, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:628826]
Coordinates
chr1:214620721-214621552:-
Coord C1 exon
chr1:214621442-214621552
Coord A exon
chr1:214620907-214621441
Coord C2 exon
chr1:214620721-214620906
Length
535 bp
Sequences
Splice sites
5' ss Seq
GGTGTAAGT
5' ss Score
8.07
3' ss Seq
GACAACCCTTCCCCCCACAGGGG
3' ss Score
11.25
Exon sequences
Seq C1 exon
GATGACTGTGGTGCCAACAGCTCACAGCCTACCTTCAAGGTCCTGACAGAGAACGTCATCTGTGGGAAGTCGGGGGTCACCTGCTCCAGAGCCATCAAGATCTCCCTAGGT
Seq A exon
GTAAGTGACTGTGATGCCTAGGGTGGAAGAAGGCCGGCTGTAATTTGATCATCAGCCCCCAGGTCTTCCAAGCTTCCTCCTTTACTGAACACCCTCCCATCCTCCCTTCTCATTTGTATGACAGGAAGATGTGGCGAGAGATTGGTGGCCAGCTGGGTGGTTGCACACTCAGAGCTGGCCACGTGGTCTCCAACAGTTTCCCAGAGCCGTATAGCATTTCGTGGGCAGAAAGAAAGCTGCTCTCCAGGAAGCTGAATCTGTTTCCACATGTCTAGCACCTTCTGTCCAGAACTGGCTCCCAATAGATACTCCTAGACATGTCTTTCGTTGTTGTTTTGAGACAGGGTCTCGTGTAGCCAGGGCTGGTCTCGAGTTTATCGTGTGTTTTAGGCTGTCTTCAAACTGATCCTCACAAAGATGGAAACCTATCATGTTGGACTTCACCCCTCCCTTCCAAAGACTCAAGTCATGGACTGATCTGGGTACTGGGTGAGCAGGAAGAGAAAGCAGGTGATGACAACCCTTCCCCCCACAG
Seq C2 exon
GGGCTATCCATCACAATGGCAGACGGTAACTACACAGTCAGTGGGGAAGAACCCCTGGTGCATCTACAAGTGAAGCCTAGCCCCCTGAATCTTGTGCTGGACATAGACATCCCTGGAAGGCTCAACCTGACACTTATGTGGAACAAGCACATGAGTGTCTCTATGAAGATCCGCCGTGAGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056817:ENSRNOT00000087497:23
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:
PF0009420=VWD=FE(23.7=100)
A:
NA
C2:
PF0009420=VWD=FE(40.1=100)
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:
GATGACTGTGGTGCCAACAGC
R:
GGTCTCACGGCGGATCTTCAT
Band lengths:
294-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]