DreINT0098273 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53411177-53412515:-
Coord C1 exon
chr6:53412344-53412515
Coord A exon
chr6:53411308-53412343
Coord C2 exon
chr6:53411177-53411307
Length
1036 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTTGTGTCTTTATTTATTAGGGG
3' ss Score
8.45
Exon sequences
Seq C1 exon
CTGAATTTCCCAAGCGTCGTCTTCGCTCCAGCTACACCACTAACTGCTTTCGGGGGCGAGGCGAGGATTACAGGGGCAAAGTCAACGAAACAACCTCTGGAATCCCTTGTCAGCGTTGGGATGCCCAGAAACCTCACGAACACCCATTTTTCCCTAAAACCTACGAGTGCAA
Seq A exon
GTGAGTGCAAGTGAATGTGTTTTGAAAATTTTGTGTGAATGTGCAAGACTTATGATTTATTTACTTGCCATAAAAAGCAGCAATGTGATTCTCTAAGTAAAATCTCCAGTAATGTTCTTTTATAGGGACAGTGATTTTTAACATTTACCGATTGACCAATAAACAGACTTCTTGTGTGTTTTGAGTATGTTAATCGATTGCATGTGATTTTGCTGAACCATCTGTTAACGTAAAATCAGCCTATTATAAAACAAATTCATGCAGTGGAAAAACTACATTACCCATGAGGCTCTGCCGAAAACTCCACCTATCGAAGAGTCACAGTGTGTTAACCAAAAACTCTTAAACTTTCCAAATATTTTAATATTTATAAAAAGCTAAAATATAGTATGTCTGATACAATTAAAAACGTATATTTTTATAGCTATTTCTTAATCATTTTGTTTATTTGTTTGTGTTATTCAGAACGCTTGTTAAGTTATCCGTTTTGTATCTTTTTGTCTGATCTTCATATATTCTGGCATCAAATCAAATTGTTTTGTAAAGTGTGATACACCTCATAGCTGATTGGTCCAATAGTATCTGGATGCAGCCTTTATGATGCAAGCTGAGATTGCATCACTCAGCGATGCAATGTCAGACACAATGCACTGAATGGAGTGAGTGACGTCACTGCGACGGTTAGGGTTAGGGGTAAGTGAACGCATTAAAAAGCATTGGATGCAGCTCAGATTGCACTGCAATCTGCATCCAGACCCCTCTCAATTGGTTTGGTTTATGGCTTATAACATTTGAACAACGACTTCACCAAACATCCCTATCTGAAAATTACTTAACAAATGGTCCCTATATATGCACTCCATAAGCAAACTAGAATAACAACAACATGCGGTAAATGGTAATGCTATTAGTCACATGATTATGACAATACAAAAGAATATGAAAGCAACTTTTAATTTGCACTATAATGCAGAATATAATGTACATAAAGGTCATATAAATGAGTTAACAGTGACCTTGTGTCTTTATTTATTAG
Seq C2 exon
GGGTTTAGAGGAGAACTACTGTCGTAACCCGGACGGCTCTGAAGCACCGTGGTGTTTTACGTCTCTGCCGGAGATGCGGACGGCGCTCTGCCTGCAGATCAAACGCTGCGCTGATGACATCGAGGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(53.2=72.4)
A:
NA
C2:
PF0005113=Kringle=PD(45.6=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAATTTCCCAAGCGTCGTC
R:
TTCAGCCTCGATGTCATCAGC
Band lengths:
302-1338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]