DreINT0099155 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72082187-72082493:-
Coord C1 exon
chr7:72082403-72082493
Coord A exon
chr7:72082294-72082402
Coord C2 exon
chr7:72082187-72082293
Length
109 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAT
5' ss Score
6.75
3' ss Seq
TTTCATCTCTTGGATTTTAGGGA
3' ss Score
9.26
Exon sequences
Seq C1 exon
ATCAGGTTAGATGAAAAATACCGGAACCAAACGTGTGGACTGTGTGGGGACTTCAATGGCATCCCAGTTTACAATGAGTTTGTCAGTGGAG
Seq A exon
GTACATTTTTTAAGTCACCATTGCCATCTATTGAGAAGTACATCTGATAAATAAATATAAATCATGTTTAACGTGACAGTAAACAATCATTTCATCTCTTGGATTTTAG
Seq C2 exon
GGAGTTCGCTGTCTGTCTCTGATTATGGGAATCTCTGGAAGTTGGACGGCCCTACAGAAACCTGCACTGAAGACACCATGTTTCTGAACGAAAACTGTGGAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:5
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:
PF0009420=VWD=FE(20.4=100)
A:
NA
C2:
PF0009420=VWD=PD(0.7=2.7),PF087426=C8=PU(5.2=10.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTTAGATGAAAAATACCGGAACCA
R:
TCATCTCCACAGTTTTCGTTCAGA
Band lengths:
194-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]