RnoINT0095745 @ rn6
Intron Retention
Gene
ENSRNOG00000019846 | Muc5b
Description
mucin 5B, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:1561983]
Coordinates
chr1:214807384-214807652:+
Coord C1 exon
chr1:214807384-214807485
Coord A exon
chr1:214807486-214807614
Coord C2 exon
chr1:214807615-214807652
Length
129 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
TCAATCCCCTTTCCTTTCAGGAC
3' ss Score
11.88
Exon sequences
Seq C1 exon
TTTGCAATTCAACCACTTGCCCGAGTCTGCCCAAATGTGAACCAGGGTACGAACTGCTCCAGACCCATGAGAACGGCAGCTGCTGTCCCATCTCCAGCTGTC
Seq A exon
GTAAGTAGGAATGGGGCAGAGGCATGAGGGAGGGGACACTGAGAGTGGTTACAATGGAGTCCAAGGATGCGGAGGAGCAAGGGTTTGTGCCCTGCTGACAGATGCATACTCAATCCCCTTTCCTTTCAG
Seq C2 exon
GACCTAAGCTGTGTACATACAATGACACCATCTATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019846:ENSRNOT00000028967:44
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:
NO
A:
NA
C2:
PF0009313=VWC=PU(12.9=61.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAATTCAACCACTTGCCC
R:
CCCATAGATGGTGTCATTGTATGT
Band lengths:
139-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]