DreINT0098263 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53403564-53404657:-
Coord C1 exon
chr6:53404580-53404657
Coord A exon
chr6:53403711-53404579
Coord C2 exon
chr6:53403564-53403710
Length
869 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
TGTGTGTCTTTGTTATGCAGTTA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GAAAGGGAATCACTTCTGTGGAGGCTCTCTGGTCAGTTCTGAATGGGTCATCAGCACTAAACAGTGCTTCTCATCCTG
Seq A exon
GTAACTCAAACTTCTGCTGCTATTAATTCTCAGACTCGGACTGGATGTTGTATTATGTGTTTTATTTAAGGATTCATGACAGGGATTTTTAAAATTATTTTAATATGTTCCTTGTACTTATACTGGTATAAACATTTGAAGATATTTCAATTATTAGTCATATCACCATCATATCACCCTGTAGCCCAAGACCAGTTAAGGCTGATTTATACTTTTGTGTCGAGTGATTGGCATTCGACCTACAGCGCCTGCATGCTGTTTGTGTTGCTCTGCACTTTGTGCCACTCTGCGTCGAGTTTCTTTGTGGGTTTTTGTTTTTTCCTGAACGCTACCTTAATGTACAAGTAGGTAAAACTCTCTCATTCCCAGGCGGGAACGGGCGGACAAGCAACAACTTTAATCATAAGGTAAACACAAAACAAAAGTTTCAATCTTGAGCTCCATAACGGGACTCAACATTTGTAAGCACTCGCTCCATCAGGCTCTCCGCACCGCCCACACTCGTCACAGCTACCCAAGCCGACCATAGGTGTTAGCCATGGCAAGGGCTATGCAACTGCGCACAGGCTGTGCCACAGCATACTAGTGCATTTGACGCAAAAGTATAAATCAGCATTAATTCACTAATTTTTAAGAGGGCAAATAATATTGACCTCAGCAGTTTTTAATTTTATTTATTCCAGCCAAACTAAAAGAAGTGAGGCTTTCTCAAGAAGAACATTATAATAGGAAATACTGAGAAAAATGTCCTTGCTCTCTTAAACAACATTTAAAAAAGGATTCAAATGTCACATGATACATACAGCCTTCAACTGTTTATCAAATGATCAAGCCCACTTTAAAAGTGTGTGTGTGTCTTTGTTATGCAG
Seq C2 exon
TTATGTGGACCTGACGGGATACACCGCTATGATGGGCACCTTGTTTCGTGACCCAAAAGAGGGAGAACCAGACCTACAGAGGATTTCTCTCACCAAAATCGTCTGCGGCCCTTCTGAATCCCACCTGGTCATGCTGCAGCTGGAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:14
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:
PF0008921=Trypsin=FE(11.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(22.2=100)
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:
AGGGAATCACTTCTGTGGAGG
R:
GTCTCCAGCTGCAGCATGAC
Band lengths:
222-1091
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]