RnoINT0094893 @ rn6
Intron Retention
Gene
ENSRNOG00000019680 | Mst1
Description
macrophage stimulating 1 [Source:RGD Symbol;Acc:3114]
Coordinates
chr8:116857684-116858555:+
Coord C1 exon
chr8:116857684-116857779
Coord A exon
chr8:116857780-116858407
Coord C2 exon
chr8:116858408-116858555
Length
628 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTTCCATGCCCATCTCACAGGGC
3' ss Score
8.94
Exon sequences
Seq C1 exon
GATGGGGCTGTGGTGGGTCACAGTGCAGCGTCCAGCTTAGGAGAATGGGGTGGCTCCCACTACTGCTGCTTCTGGCACAGTGTTCAAGGGCTCTTG
Seq A exon
GTGAGTGTCACCCACCCTGATCCTAATTTGCCTTCAGGAGGGAGTTCGCCCCGGGCCCAGACAACTCTTCTCAGAGAGTTTACTTTTCTTTTGGGCAGGGATCAGTGACCTTGGCCTGTTGGCAGCTTGGGAATTCAAATATACACTGTCTGATCAGGACTACAGTAGAACATTCTGTAGCACAGAGGTAGTCTTCCAACCAGAGAAACTGTCAAACCCAGAAGGCATGGCTCCTAACCCTAATGGGTCACTGTAACGTATGTCTTTATTCCAGTACGAGGCCAGACTGGGAGTCAGAAGGCTGAAGCTTGGGACCTTTCCTGGAAAAGCATTTTAGCTCAAAGTCCAAGTATTCTCATCCGAGGGGTGAGAAGGGGGAAGTGTCATAGGGCCAACACCACCACCCAGTTCTCATGGAGTGGACGTATTAGACCAAAGCCCAGTGCCAGGCCTACTAGCAGACTAGTAATAATCTCCCTACTGGGTATGGAGGAATCAGCTGGCCCTTGAAAATACACACAGGGCCCACCCCAAGGATTTTGTATTGGATTCCCTAAATGAACAAAAGATAGGGTGTGTTAAAATACATTACTAATGCGCACAGTCATTTTCCATGCCCATCTCACAG
Seq C2 exon
GGCAGCGCTCACCGCTGAATGACTTCCAGCTGCTTCGGGGCACAGAGTTAAGGAACCTGCTACATCCAGTGGTGCCAGGGCCATGGCAGGAGGATGTGGCAGATGCCGAGGAGTGTGCTAGACGCTGTGGGCCCCTTCTGGACTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019680:ENSRNOT00000026711:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PU(5.3=27.8)
A:
NA
C2:
PF0002421=PAN_1=FE(52.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGGGCTGTGGTGGGTC
R:
AGTCCAGAAGGGGCCCAC
Band lengths:
240-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]