DreINT0098274 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53409059-53411307:-
Coord C1 exon
chr6:53411177-53411307
Coord A exon
chr6:53409162-53411176
Coord C2 exon
chr6:53409059-53409161
Length
2015 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTGTGTCCTCCTTATTTTAGATT
3' ss Score
11.36
Exon sequences
Seq C1 exon
GGGTTTAGAGGAGAACTACTGTCGTAACCCGGACGGCTCTGAAGCACCGTGGTGTTTTACGTCTCTGCCGGAGATGCGGACGGCGCTCTGCCTGCAGATCAAACGCTGCGCTGATGACATCGAGGCTGAAG
Seq A exon
GTAAAACTGCACCCGCTAGTGGAGAACAGCAGCAACTACACCTTCAGTTTTACACACGTATGAATACTGACACTGGGCTTTTACTTTGTAGAGAGAGAAATCACTTCATATATTTTTGTTCAATTCACCTTTATTTCTATAGCACTTTTACAATGTAGATTGTGTCAAAGCAGCTTCACATAAAAGATTATAGTGAATTGAAACAGTGTCGGTTCAGTTTTCAGAGTTTAAGTTCAGTTCAGATCAGTGTGGTTTAATATTCACTAAGAGTCCAAACACTGACGATTAATCCATCGATGCGTAGCTCCACAAGTCCTGAACCATGCAAGCCAGTGGCGACAGCGGCAAGGAAAAAACTTCACCAATTGGTGAAAGTGATGGGAAAAACCTTGAGAGAAACCAGGCTCAATTGGGCACAATCATTTCTCCTATGGCCAAACGTCCTGTGCAGAGCTGCAGTCTAGGCGGCAGAGGCTGGAGAACGCTGGATGTCAGCGAAGACTTGTCTGTCTCTGGGGTCTCACTGGAATCAGATGCATACTCTCCATTCCTAAATGACCACCACAGCAGCTGCTCAGGATACGGCCTGGTCCAGGATTATGGAAACCTGGGGATCATCACTTCACAGGTCTTGGATCGCATCAGTGGCGCTGCATAGTCTCTGGGGGCCTTGGGATGAGTATTCCCAGGTAGAAATAGAGAATAAAGAGAATAATTAGCGTAGCTGCTGTTCATAGTGTATATAAATGAGATGCGTGGAGCACATTCATGCATCATACCGCTATGTGATGCATTGAGTGAATGCTTCAATAGTATCTGGATGCAGCCTTTATGATGCAAGCTGAGATTGCATCACTCTGCGATGCAATGTCAGGCACAATGCACTCAATGGAGTGAGCGACGTCACTGTGACGGGTAGGGTTAGGGGTGGGGTTAGGTGAGCGCATTAAAAAGCAAGGGATGCAGCTCAGATTGCACTGCACCAGGTCTGCATCCAGACCCCTCTTGAATGCTTTACTAAAAAGATTTAATCTAGTTTTGAACTGAGAGGGTGTGTCTGAGCCGCAGACATTATCAGGCAGGCTATATACTAGTTTGCAAACTGTAAGGTTTGGTCAGTCCACCAAGATTTTGCTAATTAAATAAAAAATGCTTTTAAAATTTAATTTCATCAAATAATATGGTTTCTATAATATATGAAACAGAAATTCTCATTGTTTTGAGTTTTAGTTATAATTTTGTGTTATATATATTAATGCAAATATTTATTTCGTATTGTTATATTATACATCTATAAATAATAATCAAATATTCACATATTTTATATGTATATGTTCAGCATTATGTATACAGTTGAAGTCAGAATTAATAACCCCCCTCTGAATTTTTTTTTTTTTTTTTAAATATTTCCCAAATGATGTTTAACAGAGCAAGGAAATTTTCACAGTATATCTGATAATATTTTTTCTTCTGGAGAAAGGCTTATTTGTTTTATTTTGCCTAGAATAAAAGCAGTTTTAATTTTTTTAAAAACCATTTTAAAGTCAAAAATATTAGCCCTTTGAGCTCTATTTTTTTAATAGTCTACAGAACAAACTATGATGTTTAGATCATAATGTTTAACTAATGTGTTAAAAAAAATCTTCTTTCCGTCACACAGAAATTAGGGGAAAAAATAAACAGGGTGGCGAACAATTCTGAGTTCAACTGTATATATACTATTGTGAAAACATGTTTTTTAGGATTTTATGCAAAAACTAAAATCTTGTATATAACAACATTTACATTTTTCATTTGTAAGGAATTGCAGGTCAGATGTCAATGCCAAAACAAATAATGCATTTTACTGAAACACATAATAAAATCAGTAAATGCAGAATTTACAATTGGTCTCTTAACTTCTTTGCTGACCTTTGATCAAATAAATGCATGGAATTTTTTTTCATGAACATAACAAATCTCCAAACATCTTTATCATTTTATAAATAACCAGGTTTGTGTCCTCCTTATTTTAG
Seq C2 exon
ATTGCTATAATGAAATCGGCAAAAACTATCGAGGTGTGGTCCGCAAGACCCGGAAAGGAATCCTCTGCCAGAAATGGAGCATCAACACACCTCACAAAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:9
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=0.057
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(45.6=80.0)
A:
NA
C2:
PF0005113=Kringle=PU(41.8=94.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]