DreINT0098262 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53404580-53405780:-
Coord C1 exon
chr6:53405669-53405780
Coord A exon
chr6:53404658-53405668
Coord C2 exon
chr6:53404580-53404657
Length
1011 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
AGAATGTTTGTGTTTTTCAGGAA
3' ss Score
9.14
Exon sequences
Seq C1 exon
CCGAGGTTGAGTTTAATGAGTGCGGAAAGCGTGAAGACCGGCTGAGGTCCAGGTTAAGAATCGTGGGCGGCACACCTGGAAACTCCCCCTGGACCGTCAGCCTCAGAGATCG
Seq A exon
GTCAGTACTGCTGCTTTTATGTCCATCACAATATAAATAGTTAGGATTAGGGTTAGTTCACACGAAAATGTAAACTCTGTTATTTATTATTCACCCTCATGTCATCATAAGGAAAGACTTTAGAATACACAAGACATGTCTTTGATAGTACATATTCTCAATACATGAAGTTGTCTGGGGTTTGTAATGACATGAGGGTAATGAGTAATTAATACAACACAGGCTCATTCTGAAAACATAGTCCTGTGGAAGTTTCTGGAGACTGTGAAATATGTAGCCGGAGGTACGTATGGCTGTATTTAATTTTTTAAGCGAACACTACGGGGCAGTATGACGCCGTTCCTTTTCGCGCTTACCGGCTGACCACTTACCTCCGTGTGGAGGGCTTTCCCGCCGCAACCAGTTTGTCCAGTTAGCTAGAACTTGAGACGCAGAGAGGAGCTGACCACAACGACAGGGAAGATCGGTTCCAGAAATCAGGTAAGAAAAAAACAGAATCCAAAAAACAAAAATGAACAAGTTCATAACTGGGTGAGAATGTGGTAAAATCCGAAAATGTGGTAAAAATCAGACGAGGGCTTTTCTTTTTCTGGATGGTTTTTGTAAATTGTTTGTTGGGTTTAGGGAAGTAAGCTGATGGGTGGGTCAATCGGTAAAATTGGTTGGGTTTAGGGAAGTAGGAGGGTGGGTCAGTCGATTGGCCGGTCGCCCAGTCAATCATTCAGCCAGTCAGACAGACAGTCATTCAACAGCGGCCTCTGGTGAGTTAACGTGAGAACAGCGCCGGCGCAAACAACACTCGCGAGAGACGTTTGAGATACAAAAAAGCGAACATAGCGGCCTCTCATGGATTTGCGAAAACAAAGACTTCAAAAATACGTACCTCCCTGGACGTATTTCGCGGTCTCCAGAAACGTCCAGGGGACCACGTTTTCAGAATGAGCCTGGGTTCAACTAATCCGTAAACATTCTGGAGGAAAAGCTGAACTGCAGAATGTTTGTGTTTTTCAG
Seq C2 exon
GAAAGGGAATCACTTCTGTGGAGGCTCTCTGGTCAGTTCTGAATGGGTCATCAGCACTAAACAGTGCTTCTCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(7.7=44.7)
A:
NA
C2:
PF0008921=Trypsin=FE(11.8=100)
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:
CCGAGGTTGAGTTTAATGAGTGC
R:
CAGGATGAGAAGCACTGTTTAGT
Band lengths:
190-1201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]