DreINT0099088 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8341864-8342234:+
Coord C1 exon
chr25:8341864-8341967
Coord A exon
chr25:8341968-8342082
Coord C2 exon
chr25:8342083-8342234
Length
115 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
GGTTTTTGTTTTGGCTGTAGGTG
3' ss Score
7.78
Exon sequences
Seq C1 exon
CCTGTGTTGCTCCAATGGTGCTCTTCAAATGCTCAAATTATGAACCAGGAAAAAAGGGCACAGAGTGTCAGAGAACATGCCAGAAACAAGACATTAACAATTGT
Seq A exon
GTAAGTTTTAGAAATTTACACATTATTTTGGCCACAAAAAATTGTGCAGGTCTCAGCTAAGAAGAAATGAGGATTACCAATGCTAAACCTTTCTGGGTTTTTGTTTTGGCTGTAG
Seq C2 exon
GTGAGCACAGGGTGTGTATCAGGGTGTATGTGTCCAGATAACCTTCTGGCTGATGGACAAGGTGGATGTGTGGAGAGGGAAAAATGTCCCTGTGTCCACAATGGAGTTACCTATTCATCTGGAGAACAAGTTCAAGAGGACTGTAACACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:20
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=PU(46.4=74.3)
A:
NA
C2:
PF0182612=TIL=PD(50.0=54.9),PF0009313=VWC=PU(32.8=39.2),PF053758=Pacifastin_I=PU(37.5=23.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTGCTCCAATGGTGCTCT
R:
ACAGTCCTCTTGAACTTGTTCTCC
Band lengths:
245-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]