DreINT0099182 @ danRer10
Intron Retention
Gene
ENSDARG00000104914 | muc5f
Description
mucin 5f [Source:ZFIN;Acc:ZDB-GENE-110411-240]
Coordinates
chr7:72099449-72099958:-
Coord C1 exon
chr7:72099766-72099958
Coord A exon
chr7:72099628-72099765
Coord C2 exon
chr7:72099449-72099627
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAAC
5' ss Score
1.87
3' ss Seq
CCGTTTGATTAAATCCACAGGAT
3' ss Score
6.96
Exon sequences
Seq C1 exon
GCGTGTGTGATAATGACCAAACAAATGATTGTCGTCTGCCAAATGGCACCATTATATCATCTTGCCAAGACATGGCTTCATATTGGCATGTGCATGATAGCAACAACAGCAAAAACTTTCTGCCATCGAGACCAGAGTCCACCACAGTGTCATCATGCCCGTCTTCTGCAATGTGCAAAATCATTGAACACAA
Seq A exon
GTAAACATGCTGTTTAACTATTCTTCAAATATGACAATAGTAGCATGTGTGATTAGATTCTAGATTGTGAATACTTGCATGCCTAGTGAATTTCTTTGGTTTCAAATCAATTTGAGATCCGTTTGATTAAATCCACAG
Seq C2 exon
GATCTTTGAGAAATGTCACAGGTTTGTCCCAGTTGAACCATATGTGTCAGCATGTACATTTGATGTGTGTAACAAGAGCAATGCAACCATTGGCTGTGCCAGTCTACAGGCCTATGCTCACGAATGCGCAATGGCAGGAGTTTGTGTAGACTGGAGAGATGCGACAAATGGAGTTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104914:ENSDART00000163536:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(10.1=24.6),PF087426=C8=PU(17.6=20.0)
A:
NA
C2:
PF087426=C8=FE(81.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGCCATCGAGACCAGAGT
R:
CCATTTGTCGCATCTCTCCAGT
Band lengths:
247-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]