DreINT0099181 @ danRer10
Intron Retention
Gene
ENSDARG00000104914 | muc5f
Description
mucin 5f [Source:ZFIN;Acc:ZDB-GENE-110411-240]
Coordinates
chr7:72099766-72100263:-
Coord C1 exon
chr7:72100080-72100263
Coord A exon
chr7:72099959-72100079
Coord C2 exon
chr7:72099766-72099958
Length
121 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGT
5' ss Score
7.23
3' ss Seq
ATCTGATTCTCTCCATGTAGGCG
3' ss Score
8.38
Exon sequences
Seq C1 exon
ATTTCTGTGAACAACAAGAAAGTCAGGTTACCGTTTCAATATGAAGATGTCCATGCCACAGAGACTGGCATCGAGTCTATTGTGGTCTTATCTGAGATTGATGCACAGATCTCTTTTACTGGCACAATGTTTTCCATCCACCTCCCATGGCAAAAGTTTCATGGTAACACAGAAGGACTCTGTG
Seq A exon
GTAGGTTCACAATCATCCTTCATTTAGTTGCAGATATTTAGTTACTTGATATTCTTCTGTCTTATCTCATCAAACTCGCTCAGATTTTTCTGTTTATTTTAATCTGATTCTCTCCATGTAG
Seq C2 exon
GCGTGTGTGATAATGACCAAACAAATGATTGTCGTCTGCCAAATGGCACCATTATATCATCTTGCCAAGACATGGCTTCATATTGGCATGTGCATGATAGCAACAACAGCAAAAACTTTCTGCCATCGAGACCAGAGTCCACCACAGTGTCATCATGCCCGTCTTCTGCAATGTGCAAAATCATTGAACACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104914:ENSDART00000163536:4
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=0.015
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(38.6=100)
A:
NA
C2:
PF0009420=VWD=PD(10.1=24.6),PF087426=C8=PU(17.6=20.0)
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:
TGGCATCGAGTCTATTGTGGT
R:
ACTCTGGTCTCGATGGCAGAA
Band lengths:
257-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]