DreINT0099129 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72072200-72072609:-
Coord C1 exon
chr7:72072354-72072609
Coord A exon
chr7:72072250-72072353
Coord C2 exon
chr7:72072200-72072249
Length
104 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGC
5' ss Score
7.14
3' ss Seq
CATGTATGTTTAAATTTCAGTAT
3' ss Score
6.72
Exon sequences
Seq C1 exon
TGAAATACACAGAAACCTGCGCCGCCACCACAGTTTACTCATATCAGATGACGAGCTGCGGGCGCACATGCAGGTCTCTCAGCCAGGCTGACGGTTCCTGCACCCATGATCATGTGCTGGTGGACGGCTGCGGCTGTGCTGAAGGAAAGTACATGAATGAGAACGGAGACTGTGTTGAAGCTGCCGCCTGCTCCTGTTACGATTCAGGCAAAGTCGTTGCTTTAGGAGAGACCATCTCCAAAGACGGAGGATCATG
Seq A exon
GTATGCACATTTCTGCTAAATTCAATATTTGTGGGGTCACACTTCAGAATATTGGACAACTGTTTAATCAATGTATTTTAATCGCATGTATGTTTAAATTTCAG
Seq C2 exon
TATTTGCCAGCAAGGGAAACTGAGCTGCTCTGGTGTATCAAATGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:17
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:
PF087426=C8=PD(1.3=1.2),PF0182612=TIL=WD(100=67.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCCACCACAGTTTACTCAT
R:
TCAGTTTCCCTTGCTGGCAAA
Band lengths:
258-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]