RnoINT0095780 @ rn6
Intron Retention
Gene
ENSRNOG00000056817 | Muc6
Description
mucin 6, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:628826]
Coordinates
chr1:214614267-214616624:-
Coord C1 exon
chr1:214616406-214616624
Coord A exon
chr1:214614819-214616405
Coord C2 exon
chr1:214614267-214614818
Length
1587 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCACTGATATCCACCTCGGCCG
3' ss Score
-4.37
Exon sequences
Seq C1 exon
AATACCCCCAAACCACTGTGGCTACCAGACCACTGACATCACCTTTGTCTCCTACGTCTATACCGAAGTCAACACCCACAAGGCCCACAGTGACAGAGGCAACATCCAAACCCACAGCATCTTCCCTCAGCTCATCCACAAAGACCACAGCCGAGTTCACAGAGAGTACCACAGTGACACTGCTAACCTCAGTAATGACTGGGATGTCTACCAGCCAAG
Seq A exon
GTGAGTCAAGGCCTGTGGGAAGCCACGGCACTCAAAACACATGTTTGAATATGACTCTCAGTAGAGCACATACAACTAAGGAGGAGGATATGTATATTCAAAAGATTAGGGAGAAAGGGAACAAAGGGGCAGATAATCACCAAGAGGGGGAGAAACAGCCTACATCAAGGTAAGTGTTCAGGAGGAAAAGGTAGAACTGCACTAAAATTAGCCAGAGAAAACCAAGTATCTAAAGAAGTGGGCAATTCACAGGGAATCGATCTACCATGCTGGGAGGGCAGAGTGAATATCAAAGAACAGAACCGCAGCATAAAACAAATGAAGGGCAAAGAGCTTAAACTGATTATTATTCCCTGCCACGATCCACAGTGACATCAACCCAACAGGAAAGTCACACTACAGCCACAACAAGTTACGCAGGAGAGACCACAGAGGTACCTCTCACAGGAAGGACTACCATGACCACGCATCAGTCATGGTCAAGCAATAGCCTAGCACCACCTAAAACAAGTACACGAGCTCCTCAGACCCCTTCGGTCACATCACTGCCATCACTTTCACCTTCCTCTGTGTCACCAACTTCAGAGGTACACATCACCCCAACTAGCCCACACAGTCACACAGTCTCCTCGGTGTCTATGTCTGGCCCAGTGAGCACCATTCTACAAACCACGATAGAACAAACACGACCTCCAAACACACCCACAGCTGCCACTTCCTCAACCAGCGCCACCACCCAAACTCAAAGCTCTTTCTCCACAGAGAGAACCTCTACTTCCCACCTTTCCCAGACTTCCTCCAACACTGTTCATCCATCCACAGCAGGACCTACAACCACTGCCACCAAGTCCACCATGGGAGGAACTGCCACTCCAGTGGTCCACACCACCTCAGGCGCCAGTACCACTCCCCAGGCTGGGAGTTCCACACACCTTCCCACCACTGCTGCTGTCTCCAGCACAAAACACACCACAGGTGTCTCCTTAGAAACATCTGTGCAGACCAACACAGCCTCCCCTACACCGTCAGCACTTCAGACCTCACTGGCCACAACACCTCCCTCATTTTCAACCTCCGCAGTGACGCAGACTTCTGAGGTAATTGTCACTCCTACACCCCAACACACAATTTCATCCGCCTCCACCTCCACAGCAAGGGCAACCATTCTTCCCACCACCCTGGAACAAACTCGGCCTCCTCACACATCAGCACCTGTCATTTACACAACCGGCGCCATCACCCAGACCAAAACATTCTCCACAGGCAGGACATCCCCCTCTACCTCACACCCCTCAGAAACAGCTTCAGTGACTGCCCACGGGTCCACATCAATGCCAGCGACTTCCAACTCAATTAAGCCAACCGTGAGTTCAACTGGCACACCCGTGATCCACACCACCTCAGCCACAACCAGCGGCCCTCAGACTCCACGCACCACACACCCTTCACCCACCGAGGCTGTCTCCAGCACAGTGCAAACCACCGGGCTCCCCTCAGGAACATCCATGCAGACTGCCACCAACCTCCCGACCCATTCAGGTCCTCAGACCTCAGCGTCCACACAACCCCCACTGATATCCACCTCGG
Seq C2 exon
CCGTGACACCCACCACTGAGATACTGAACACACCAACCGGCCAACACTCGGTGTCACCGGCCGCCTCCTCCACGCCACCGAGGACTGTCCTTCCAACCACCCTGGAAGGCACAAGGCCGCCTCACACAACAGTACCTGTCATTTATACAACCAGTGCCACCACCAGCACAAAAGGCTCACTCTCCACACACAGGACATCTACAGCACATCTCTCAGAGTCTTCCGCCATGACACCCACTCAATCAACATCAATTCTAGCTACCACCAACTCACTTAAGCCCACCACCGGTGTAACTGCTACCTCAGTGGTCCACACCTCCTCAGGCACACCTAGCAGCGCCCCTACTCCACACACCACACTCTCCCCACCCACGGCAGTTTTCTCCAGCACTACACACAGCACAGCTCCCCACGTCAGAACATCTGAGCCGTCCACCACCACACTCCCAACGCCATCAGCTCCTCAGACCTCTTCGGTCACATCACTGCCATCACTTTCACCTTCCTCTGTGTCACCAACTTCAGAGGTACACATCACCCCAACTAGCCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056817:ENSRNOT00000087497:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCAACATCCAAACCCACA
R:
GTGTCATGGCGGAAGACTCTG
Band lengths:
358-1945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]