RnoINT0095720 @ rn6
Intron Retention
Gene
ENSRNOG00000019846 | Muc5b
Description
mucin 5B, oligomeric mucus/gel-forming [Source:RGD Symbol;Acc:1561983]
Coordinates
chr1:214790308-214790893:+
Coord C1 exon
chr1:214790308-214790459
Coord A exon
chr1:214790460-214790754
Coord C2 exon
chr1:214790755-214790893
Length
295 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AATGACCTTTCCTTTCCCAGCAC
3' ss Score
8.48
Exon sequences
Seq C1 exon
TTCAGCACACAATGTGTCTCGGGCTGCGTGTGTCCCTCAGGGCTGGTAGCAGATGGGAATGGGGGCTGCATTGCTGAGGAGGACTGCCCCTGCGTACACAATGAGGCCACATACAGACCTGGGGAGATCATTCGGGTAGACTGCAATAACTG
Seq A exon
GTAAGTCTTGGGATCTCAGAGGGGGTCAAGAGGCATCTACAGGGACACTGGTGTGAGATATTGATATTTTAGGGGCCTCAGCATGTGTCTTGGGGCCAAGGTACTCCCAGGACCCCATTCTGTGGAGGAAGGACTGTTTATCGAGCCTAGGGTGATTGGAAACACAGCCACACATGACCAAAGCTTGACTTACACTGAGCTTAATTCCCCAAGTGAAGTGGCTTGCTAGCACAGGACCAGGACAGCTGGTCTCAGAGGACAATTCCCTTGTCAGCAATGACCTTTCCTTTCCCAG
Seq C2 exon
CACCTGCCGGAACCGCCGGTGGGAATGCACCAACCAGCCCTGCATGGGTGCCTGTGTAGCCTATGGGGACGGCCACTTTGTTACCTTTGATGGTGAACGTTACATCTTTGAAGGCAACTGCGAGTATACCTTGGCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019846:ENSRNOT00000028967:21
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(45.2=54.9),PF0009313=VWC=PU(32.8=39.2)
A:
NA
C2:
PF0009313=VWC=PD(65.6=85.1),PF0009420=VWD=PU(18.5=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCACACAATGTGTCTCGG
R:
TGAGCCAAGGTATACTCGCAGT
Band lengths:
289-584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]