DreINT0099089 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8342083-8342520:+
Coord C1 exon
chr25:8342083-8342234
Coord A exon
chr25:8342235-8342381
Coord C2 exon
chr25:8342382-8342520
Length
147 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GAATTATGTCTATATTACAGCAC
3' ss Score
5.83
Exon sequences
Seq C1 exon
GTGAGCACAGGGTGTGTATCAGGGTGTATGTGTCCAGATAACCTTCTGGCTGATGGACAAGGTGGATGTGTGGAGAGGGAAAAATGTCCCTGTGTCCACAATGGAGTTACCTATTCATCTGGAGAACAAGTTCAAGAGGACTGTAACACCTG
Seq A exon
GTGAGCCAGCGTTATTAGCAATAGGAAATAAATGACAAATATATCATCACATGTGCACTTAAGTAATATTATGAGATTCCCTATATAGGTGGTAAATTGGTGCAAACCATTAAAAGGCTGAATCTATGAATTATGTCTATATTACAG
Seq C2 exon
CACATGCAGAAATGGGATGTGGGATTGCACGGAAAAAGAGTGTTACGGCACCTGCACCATCTATGGTGAAGGTCATTTCATGACATTTGATGGCAAGAAATATTCTTTCCATGGAGACTGTGAACAAATCTTAGTCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:21
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(50.0=54.9),PF0009313=VWC=PU(32.8=39.2),PF053758=Pacifastin_I=PU(37.5=23.5)
A:
NA
C2:
PF0009313=VWC=PD(65.6=85.1),PF053758=Pacifastin_I=PD(59.4=40.4),PF0009420=VWD=PU(18.7=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCTGGCTGATGGACAAGG
R:
AGATTTGTTCACAGTCTCCATGGA
Band lengths:
242-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]