DreINT0099140 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72063032-72063322:-
Coord C1 exon
chr7:72063175-72063322
Coord A exon
chr7:72063076-72063174
Coord C2 exon
chr7:72063032-72063075
Length
99 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TGTGCTTTTTCCCCAATTAGTAA
3' ss Score
6.39
Exon sequences
Seq C1 exon
GTTGCTATCCCCAATGCCCTCAAGAGCAGCCTGTTTTTGATGAGGATAACATGAAGTGTGTGAAGCAGGAAGAGTGTGGCTGTTTTGTTGACATGGAACATTATGAGGTTGGAGAGCAAGTGCCAACTACAGAGAACTGTCAGTCATG
Seq A exon
GTATGTGTGTATTTTTAACTTACACACCTGTATCTAATTTGTGTCCCAAGTATATTTCAAACAGATTACATGTGATACATGTGCTTTTTCCCCAATTAG
Seq C2 exon
TAACTGTTCATCAACTGGAGTTATTTGTGAATTTGATATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:27
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(41.7=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCTATCCCCAATGCCCTC
R:
TCACAAATAACTCCAGTTGATGAACA
Band lengths:
178-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]