DreINT0099090 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8342382-8342723:+
Coord C1 exon
chr25:8342382-8342520
Coord A exon
chr25:8342521-8342612
Coord C2 exon
chr25:8342613-8342723
Length
92 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
AATTTGTTTGGTTTCTCTAGGAT
3' ss Score
8.96
Exon sequences
Seq C1 exon
CACATGCAGAAATGGGATGTGGGATTGCACGGAAAAAGAGTGTTACGGCACCTGCACCATCTATGGTGAAGGTCATTTCATGACATTTGATGGCAAGAAATATTCTTTCCATGGAGACTGTGAACAAATCTTAGTCCAT
Seq A exon
GTATGTTTTGCATCAATTTTGGCCTTTCCAAGTTAGAAAGAAAATTAGATTACAACCTTATTACAATCTTACAATTTGTTTGGTTTCTCTAG
Seq C2 exon
GATTACTGCAATACAGACCAGAGTCCATACTCTTTACGCCTTGTCACAGAGAACATCCCATGTGGCACCTCTGGAACCATTTGCTCCAAGTCCATCAATCTTTTCTTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:22
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:
PF0009313=VWC=PD(65.6=85.1),PF053758=Pacifastin_I=PD(59.4=40.4),PF0009420=VWD=PU(18.7=59.6)
A:
NA
C2:
PF0009420=VWD=FE(24.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAGTGTTACGGCACCTGC
R:
GGTGCCACATGGGATGTTCTC
Band lengths:
174-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]