DreINT0099141 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72062731-72063075:-
Coord C1 exon
chr7:72063032-72063075
Coord A exon
chr7:72062947-72063031
Coord C2 exon
chr7:72062731-72062946
Length
85 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TACTTTTGCTTCATTTTCAGCAT
3' ss Score
8.08
Exon sequences
Seq C1 exon
TAACTGTTCATCAACTGGAGTTATTTGTGAATTTGATATAAATG
Seq A exon
GTAAGATCTCTCATATTTCAGTTATAGTTTAGTTTAAAATGGTATAAAAAAGATATGTTTTCTTATACTTTTGCTTCATTTTCAG
Seq C2 exon
CATGCAGATGCCAATACAATAATGATACATACTATTATGGAGACATCATTTATCACACAACGGATGGACTTGGAGGCTGTATCACAGGCATATGTTCAGTCAATGGCACTATTGAAAGAAGTATAGATCCTTGTGAAACAACAACAGTCCCAACGACCACATCCAGCTTGATCACAACACCAACCCCGACAACAGTTTTTGTCTTCAGCACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:28
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=0.241
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAACTGGAGTTATTTGTGAATTTGA
R:
GACTGTTGTTGTTTCACAAGGA
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]