RnoINT0095733 @ rn6
Intron Retention
Gene
ENSRNOG00000019846 | Muc5b
Description
mucin 5B, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:1561983]
Coordinates
chr1:214801414-214803268:+
Coord C1 exon
chr1:214801414-214802875
Coord A exon
chr1:214802876-214803086
Coord C2 exon
chr1:214803087-214803268
Length
211 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTGTGCCCTTTCCCTCCCAGGGG
3' ss Score
11.48
Exon sequences
Seq C1 exon
GAAACCAGCAGCCCGGGAAGAGCCTCCTCAATCCATACAACACCCAAGACCTTGCCTGAGACATTACAGTCGACATCTGGCTTGACAACACAACAGATCTCGTCAACTGGAATCTGGACAAGTGTACATACGGGTACAGCTGGCACTGTCTCCCCAAAATCTCTGTCCACCACCCTAGAAACGACTACAGGCATAAAAGAGCCATCCACCAGTGTACCAATGACACATACCCTACCACCAACCGTGACTAATGCAACCACCTCCCAGGGCACAACACACTGCCAGCCCAAGTGTAAGTGGACTGAATGGTTTGATGTGGACTCACCGACATCGGGGGTAGTAAAAGGGGACATGGAGACCTATGAAAACATCAGGGCCTCTGGCAAGAAGATGTGCCAGGCACCAGAGAAAATTGAGTGTCGGGCAGAGAACTACCCTGCAGTGAGTATTGATAAGGTTGGTCAAGTAGTAAGCTGCAACCTGGAGACGGGGCTAGTCTGCAGAAATGAGGAGCAGACAGATGATTTTAAAATGTGCTTCAACTACAATATACGTGTGCTTTGCTGTGATGACTATAGCCACTGTCCTGAAACCCCTTACAGCACCATCAAGCCATCCCCGCTCTGGTCTACCCCTACGCCCCTGGTCCCTTTCACAACCTCAGTGTCCTCGAGCACGGAGTCCACCTTTCAGACTAAGCATCCCTCCAGCTCTTCCGTATCAAGCACCCAAGCCTCCACATGGACTATATCTCCTGACTCGGGCTGTGAACCTCGCTGCAAATGGACAGAGTGGTTTGACGCCGACTTCCCCAACCCTGGCCCCAGAGGCGGGGACTTTGAGGTCTACGCAGTGCTTCGTGAGGTTGGCTTTATCTTCTGTGATCAACCCAAGGACATCCAATGCCGTTCAGAGAAGGAGCCAGACAAGCCCCTGGAAGCTCTACAGCAGGTGGTCCTGTGTGATGTGCGATTCGGGCTGATATGCAAAAATATCAACCAATCGGGACCTTTGCAGTATTGTGACAACTACCACGTGCGCCTCCTCTGCTGTGACAACTATAGTCACTGTACCACGTCACCTCTGGCCACCACATCCACTGTCCCTTCTTCCTCTCGCCTGTCCTCTACCCACACTGCCCCAGCTTTGAATACCACGACTTCTTTCCCTGGGGTCTCTAGTTCCAGCGTGCCCCACTCCTCTTCCCTGGTATCTACTCACACCTCGGCAGTGTTGACCACCCTGACTTCAACTATAGCCACTGGTCCCATTGTGATCCCCTCCTCAACCTCAGGGACCCCTCACACCCCTGAAGTCTTCCCCAGCAGTCAGGCGACCTTCAGCGTGTCTACTGCTTCTTCCTCCTCGGTGTTCAGTACCTCCAGGCCTACTGTCATTTCCAGCCAAGCATCTTCCCCATCACCCTGTTTCTGCCGGGCATTTGGACAGCTGTTCGTACCTG
Seq A exon
GTGAGTAGAAAAGCCCATGTTCTCCCTACCCTATATCCCTTGTCAGTTTTTGGAGCTATGGGGTCTTTTGTGTATACAAGGTTCAGTCAATGCCCTTTGAACGAGATTCTCTTTCCCTCAGGTTACCCCCATACCCTATGTCTCTGCCCTGGCACTAGCCTGCCTCTTCGGCTGGGTGTTGCTATGTTTTCTTGTGCCCTTTCCCTCCCAG
Seq C2 exon
GGGATATCATCTACAATAAGACTGATGGAGCTGGCTGCCAATTCTATGCCATCTGCAACCAGCACTGTGATGTTGACCGCTTCCAGGGTGCCTGCCCCTCCTCTTCACCTCCAACGCCCTCTACCCCTGCGCCTTTGTCTCCCCTGCTTCCTGGCTGTGATAATATCACCCCTCCCCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019846:ENSRNOT00000028967:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.287 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF133301=Mucin2_WxxW=WD(100=18.6),PF133301=Mucin2_WxxW=WD(100=18.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTTCAGCGTGTCTACTGC
R:
GCCGGGGAGGGGTGATATTAT
Band lengths:
308-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]