DreINT0099093 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8343115-8343615:+
Coord C1 exon
chr25:8343115-8343354
Coord A exon
chr25:8343355-8343458
Coord C2 exon
chr25:8343459-8343615
Length
104 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
AAAAGTTTTGCTGTCTCTAGGTG
3' ss Score
8.3
Exon sequences
Seq C1 exon
GGCAAGGTGTGTGGATTGTGTGGAAACTTTGATGGTAATGCTAACAATGACTTTATGAAACATGATGGAGAAGAAGTCACCGATCCAGTGGTATTCGGGAATAGCTGGAAGTCGAATCCAGGCTGTCCGGATGTGAGCAATGTTATGAACCCATGTGAAAAGAATCCACACCGGAGTGCCTGGGCTATCAAACAATGCAGCATCATTACAAGCCCTGTCTTTTCAGACTGCCATTCACGT
Seq A exon
GTAAGTAAAATTATATACTTAGTGCATTCTGAAAATTTTGTTCTTCTGGACTTTGCCCTTATTGTTTCCATGCCTGAAATAAAAAAAAGTTTTGCTGTCTCTAG
Seq C2 exon
GTGGACTCTGGCCCATACTATGATGCCTGTGTAAAGGACACCTGTGCATGCGATAGCGGGGGTGACTGTGATTGTTTCTGTACTGCAGTGGCTGCTTATGCTGCTGAATGCCGTAAAACCGGTGCTTGCGTAGCATGGCGAAGCCCAAGTATTTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(15.3=28.8),PF087426=C8=PU(28.0=26.2)
A:
NA
C2:
PF087426=C8=FE(69.3=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:
AGAAGTCACCGATCCAGTGGT
R:
AAACAATCACAGTCACCCCCG
Band lengths:
246-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]