DreINT0099092 @ danRer10
Intron Retention
Gene
ENSDARG00000058556 | muc5.2
Description
mucin 5.2 [Source:ZFIN;Acc:ZDB-GENE-121108-1]
Coordinates
chr25:8342848-8343354:+
Coord C1 exon
chr25:8342848-8343027
Coord A exon
chr25:8343028-8343114
Coord C2 exon
chr25:8343115-8343354
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TAACTTGATCTCTATGACAGGGC
3' ss Score
6.4
Exon sequences
Seq C1 exon
AGATACAAACTGATTTTATCAGAGGAGAAAGAAATTCAAGTTGTTGAAAGCAATGGCACAGATTACCAATACCAAATCCATACTGCTGGGATATACAATGTCATTGAGGTCAAAGGTCTGTTGAACTTAATCTGGGACAGTAAAACAAGTGTGATGCTCCAACTGCATCCCAAGTTTAAG
Seq A exon
GTAAGCATTACCCCTTTGTACACAAACAAATCAATTCATTTTCCCGTTTATTCACTCACCTTAACATTAACTTGATCTCTATGACAG
Seq C2 exon
GGCAAGGTGTGTGGATTGTGTGGAAACTTTGATGGTAATGCTAACAATGACTTTATGAAACATGATGGAGAAGAAGTCACCGATCCAGTGGTATTCGGGAATAGCTGGAAGTCGAATCCAGGCTGTCCGGATGTGAGCAATGTTATGAACCCATGTGAAAAGAATCCACACCGGAGTGCCTGGGCTATCAAACAATGCAGCATCATTACAAGCCCTGTCTTTTCAGACTGCCATTCACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058556:ENSDART00000153536:24
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=0.039
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(39.3=100)
A:
NA
C2:
PF0009420=VWD=PD(15.3=28.8),PF087426=C8=PU(28.0=26.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTCCAACTGCATCCCAAG
R:
ACATTGCTCACATCCGGACAG
Band lengths:
170-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]