DreINT0099177 @ danRer10
Intron Retention
Gene
ENSDARG00000104248 | muc5a
Description
mucin 5a [Source:ZFIN;Acc:ZDB-GENE-110914-165]
Coordinates
chr25:8097685-8098033:+
Coord C1 exon
chr25:8097685-8097823
Coord A exon
chr25:8097824-8097925
Coord C2 exon
chr25:8097926-8098033
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAGGTCACT
5' ss Score
3.39
3' ss Seq
TTGCTTTTTTTTAATTCCAGCAC
3' ss Score
7.8
Exon sequences
Seq C1 exon
TACATGTGATGCTGGACACTGGACCTGCTCATACCTGGACTGTCCTGGAATCTGCTCTGTTGTTGGAGGGTCTCACGTCACCACTTATGATGGAAAAACCTTCACCTTCAGTGGGAACTGCGACTACATCCTCACTAAG
Seq A exon
GTCACTAATAGTCTGATAGTCTGCTTGCAAGTTAAGAACAAAGGCTATCCAACCATCATTTATAATTTGAAAGTGCTTATGATTGCTTTTTTTTAATTCCAG
Seq C2 exon
CACTATAACAACAGTGATTTTGCTGTAGTGGGAAATCTGGCACCATGTAATCCGTCCCGAACAGACATTTGTCTAAATTCAGTTGCCCTTGTCCTCTTGGGAACCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104248:ENSDART00000162129:9
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(62.5=74.5),PF0009420=VWD=PU(18.3=59.6)
A:
NA
C2:
PF0009420=VWD=FE(23.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGTGATGCTGGACACTGG
R:
CCAAGAGGACAAGGGCAACTG
Band lengths:
238-340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]