DreINT0098270 @ danRer10
Intron Retention
Gene
ENSDARG00000103308 | mst1
Description
macrophage stimulating 1 [Source:ZFIN;Acc:ZDB-GENE-020806-3]
Coordinates
chr6:53418283-53420527:-
Coord C1 exon
chr6:53420391-53420527
Coord A exon
chr6:53418404-53420390
Coord C2 exon
chr6:53418283-53418403
Length
1987 bp
Sequences
Splice sites
5' ss Seq
ACGGTTAGT
5' ss Score
7.37
3' ss Seq
TTATATGTTTCTGCATTTAGAGG
3' ss Score
7.23
Exon sequences
Seq C1 exon
ATGGACTCCGTCTGCGACTAATGGCCTGGAACTGAACTACTGCCGAAATCCAGACGGCGACCGCATCGGCCCCTGGTGTTACACCACTGACCCCGAACGCAGATACGAGAGCTGCAATATCCCTCAGTGCAAAGACG
Seq A exon
GTTAGTTGGCATCCAATTCCTTACAAATACCATGTGAACCTAAAAAAGTCATTAATAAAGTTAGAAAAGTTAAGCAGTTACACAGTTAATAGTACCTGTGTTTACAATAATTTTGTGACATAAAAGTGAACTTGCATAACTCAGCTGATCACACAATGGCTCATAGACCACAATCAGCTGTTAGAAAGTAGCCTAGAGCGCCACCTGGTGTTGAAAACTAACCTAGAGTTCCATCTGCTGTTTAAAAACTACCCAAGATTGCCATCTGCTGTTAAAAAACTAGAATGCTGTCCGCTGTTAGAATCTAGCCTAGAGTACTATCTACTGTTTAAAACTATCCAGGAGTAAGCATTATACTGTTAAAAACTAGCCTAGTGCACCAACTGCTTTTAAAAACATGTATAAAGTACTATCTACTGTTAAAAACTAGCCTAGAGCAGCACGTAATGTTGAAAACTAGCCTAGGGTGCTACCTATTGTTGAAAACTAGCCTATAGCGCCATCTGCTGGTAAAAATTAGCCTAGAGTAAGCATTATACTGTTAAAAAATAGCCTAGAGCACCATCTGCTGTTAAAAACTAGCCTAGAGCACCATCTGCTGTTAAAAAGTAGCCTAGAGCACCATCTGCTGTTAAAAAGTAGCCTAGAGCACCATCTGCTGTTAAAAAAATAGTCTAGAGTGCCATCTGCTGTTAAAAACTAGCCTAGAGCTCCATTTGCTGTTAAAAACTACCCAAGATCCTCATCTGCTGTTAAAAAAACTAGCCTAGTGTTAGCATTATATTTTTACAAACTAGCCTAGCGCACGACCTCCCTACAGAAAAAGCCAGCTTAAACCAGCCTAGGCTGGTTAGCTGGTTTAAGCTGGTCGACCAGCCTGGTTTTAGAGGGGTTTTGGCCATTTCCAGCCTTGTCTTAGCTGGTCAGGCTGGGAGATGACCAGCTAAAACGAGCTTTACCAGTCTAGCCAGGCTGGGATCCTAGCCAAAACCAGCTATGTCCAGCTTAAACCAGGCTGGTCAAGCTGGTTTTAGCTGGATTTAGCTGGTCATTTTCCAGCCTGACCAGCTAAGACCAGCCTGGAAATGGCCAAAACCCCTCTAAAACCAGGCTGGTCAACCAGCTAAAACCAGCCAACCAGCCTAGACTGGTATAAGCTGGATTTTTCAGCAGGGCTGCTTTTAAAAACTTGCATAGAGCAACACTTGGTGTTAAAAACTAGCCTAGAGCACCATCTGCTGTAAAAAATTAATCCAGAGTAAGTATTATTCTGTTAGAAACTAGCCTAGAGCGCTGTTAAAACTAGCCTAGAGCACCATCTGCTGTTAAAAATTAGGCCAGAATAAGTATTATTCTGTTAGAAACTAGCCTAGAGTGCTGTTAAAAACTACCCTAGAGCACCATCTGCTTGTAAAAAAAACTAGCCTAGAGTACTATCTGCTGTTAAAAACTTGCCTAGAGCATTAAGTAATGTTAAAAACTAGCCTATAGTGTCACTTATTGTTGAATACTAGCCTATGGCACCATCCACTGTTAAAAACTAGCCTAGAGTAAGCATTATACTGTTAAAAATAGACTAGAGTGCCATCTGCTATTAAAAACTAGCCTAGAGGGCTGTTTGCTGTTAAAAACTATCCTAGACTGCCAACTGGTGTTGAAAACTAGCCTAGAGCACCATCTGCTGGTACAATCTACCTTACAGTGCCATGTGCTGTTAAACTACCCTGGAGCGCCTCCTGCTTCTGAAAACTAGCTTAGAGCGCCATCTACTGTTAAAAACTAACCTTCAATAGGAGAGAATATTGGTGCATTTTTAAAATCTCAGACACATTTTTCGAACAATTTATTGTCACAGTTGTATTTGAGATGCTACTTTTAAAGGCTCTTATTATTATGCTCTAAGAAATCATCACTTAGTCAAACTTTCCAGTGTTGTCATATTTACAGTCATTGTGAGCAGATGGGTTTTATATGTTTCTGCATTTAG
Seq C2 exon
AGGTGTGCATCACTTGTAATGGTGAAGACTACAGAGGGCAAGTGGATCACACTGTCAGCGGAAAAGAGTGTCAGAGATGGGACCAACAGTTTCCACATCAACACATCTACCAGCCGGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103308:ENSDART00000162791:5
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=0.098
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(55.8=91.5)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
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:
TGGACTCCGTCTGCGACTAAT
R:
TCTCCGGCTGGTAGATGTGTT
Band lengths:
256-2243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]