DreINT0098261 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53405669-53405899:-
Coord C1 exon
chr6:53405867-53405899
Coord A exon
chr6:53405781-53405866
Coord C2 exon
chr6:53405669-53405780
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CTGTCCACTGTGTGTAAAAGCCG
3' ss Score
2.33
Exon sequences
Seq C1 exon
CTGGAGAGAAAGTGCCAATCATCGGTCCAACAA
Seq A exon
GTAAGTCAAACACACGACACACAGCGAGAAGTGCAGACTCTGATGTGTGTGAATCTAATGTAAACCCTGTCCACTGTGTGTAAAAG
Seq C2 exon
CCGAGGTTGAGTTTAATGAGTGCGGAAAGCGTGAAGACCGGCTGAGGTCCAGGTTAAGAATCGTGGGCGGCACACCTGGAAACTCCCCCTGGACCGTCAGCCTCAGAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:12
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=0.237
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(7.7=44.7)
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:
TGGAGAGAAAGTGCCAATCATCG
R:
GATCTCTGAGGCTGACGGTCC
Band lengths:
143-229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]