DreINT0065041 @ danRer10
Intron Retention
Gene
ENSDARG00000056012 | eve1
Description
even-skipped-like1 [Source:ZFIN;Acc:ZDB-GENE-980526-69]
Coordinates
chr3:23512592-23513282:-
Coord C1 exon
chr3:23513052-23513282
Coord A exon
chr3:23512831-23513051
Coord C2 exon
chr3:23512592-23512830
Length
221 bp
Sequences
Splice sites
5' ss Seq
TGCGTAAGT
5' ss Score
9.73
3' ss Seq
TAAAATATTCTTTTCAGTAGCAG
3' ss Score
1.76
Exon sequences
Seq C1 exon
CGACCTGAAAGATGCAGAGGTGAGGGAGGAGGGGGGTGGACAGCGACTACAAAAACAACTCATCTTTCCTTTCATAAACGAACTTGGCTTGGAAGAGAAACAGTGACGAGAGAGAATTGCTATTTTTTTAGTAGGGCCTGGTTTGGGAGTGTTTTGAGGACTATGAGAAATTAGTGAAAATCAATTACAGGAGTATTTGGATTGCGGAAGTGGATCCTAACGACAAAATGC
Seq A exon
GTAAGTAGCCTACAGCATCCATATTATAACAGCTAGATTAATGCACTTTTTAATTAGTAAAAAAAGCTTACTGTACAGAATCAAAATCTGTCCAGCGAGTTAATTTACTTAGTGAATTAACTTTGTGAGTTTACAGCACAAATCAGTCTTTCTGACTGTAATTGTTACAAAGCTATACGTCAAGTAAGGCATTGCCTAATGTAAAATATTCTTTTCAGTAG
Seq C2 exon
CAGAGGACAGGGAGTCACCAGTGTCTACTGTTGCTCATGCTGACAGTGACCAAGGAGAGGAAGAATGCCCTCGTATTTCACTACTGAATGGTATCGACCAAAGTCGGCGGCACCGGACAGCTTTCACGAGGGAACAGCTGACTCGTCTTGAGCAAGAATACTGCAAAGAAAGTTACGTGTCTCGACCCAGGCGATGCGAACTGGCGGCAGCCCTTAACTTGCCCGAGACCACAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056012:ENSDART00000140264:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.393
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(77.2=54.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGATGCAGAGGTGAGGGAGG
R:
CGAGGGCATTCTTCCTCTCCT
Band lengths:
296-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]