DreINT0098259 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53408840-53409161:-
Coord C1 exon
chr6:53409059-53409161
Coord A exon
chr6:53408977-53409058
Coord C2 exon
chr6:53408840-53408976
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
TAGCCTATTCATATTTGAAGGAT
3' ss Score
3.49
Exon sequences
Seq C1 exon
ATTGCTATAATGAAATCGGCAAAAACTATCGAGGTGTGGTCCGCAAGACCCGGAAAGGAATCCTCTGCCAGAAATGGAGCATCAACACACCTCACAAAACCAA
Seq A exon
GTAAGACTGACGGATGGAAAATAATTATATAGGTACTCCAAAATCAACTGAACTGACACATTTAGCCTATTCATATTTGAAG
Seq C2 exon
GATAAACCCCAAAACACACCCAGAAGCAAACCTTACGGACAACTACTGCAGGAATCCAGACGGAGATCATCACGGCCCCTGGTGCTACACCTCTGACCCCAAGACTGAGTTTGACTACTGCGCCATCAAGCAGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.213
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(41.8=94.3)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=95.7)
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:
GCAAGACCCGGAAAGGAATCC
R:
TCAGTCTTGGGGTCAGAGGTG
Band lengths:
169-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]