DreEX6018966 @ danRer10
Exon Skipping
Gene
ENSDARG00000077915 | lmx1al
Description
LIM homeobox transcription factor 1, alpha-like [Source:ZFIN;Acc:ZDB-GENE-131213-1]
Coordinates
chr3:52613684-52621438:+
Coord C1 exon
chr3:52613684-52613916
Coord A exon
chr3:52621115-52621278
Coord C2 exon
chr3:52621361-52621438
Length
164 bp
Sequences
Splice sites
3' ss Seq
ATTTTTTTTTCCCTGTGCAGTAA
3' ss Score
9.21
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
Exon sequences
Seq C1 exon
GTTGTTTGTGCGTAAGTGCAGCGCGTGTCTGCAGGCGATCGGCCGCTCAGAGCTCATCATGCGAGTGTTGGGACAGGTGTATCACCTGGGCTGCTTCAGCTGCTGCGAGTGTGAGCGCCGCCTGCAGAGAGGAGATGAGTTTGTGCTGAAGGAGGGACAGCTGCTCTGCAGAGGAGACTACGAGAAGGAGAGAGAGATGCTGGCCGCCATCAGCCCGGCACCCACAGAGTCAG
Seq A exon
TAAAGAGTGAGGATGAGGAGGGTGGTGGTGTCTCTGTCGGAGGAAAGGCTGGGGATGATGGAAAGGAGCACAAGAGATCCAAGAGGCCCCGGACCATCCTGACCACACAACAGCGGCGCGCCTTCAAGGCTTCCTTCGAAGTGTCTTCCAAACCCTGCCGAAAG
Seq C2 exon
GTCAGAGAAACTCTGGCAGCTGAGACTGGACTGACGGTCAGGGTCGTGCAGGTGTGGTTCCAGAATCAGAGGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077915-'3-6,'3-5,4-6=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=0.673 C2=0.115
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
A:
PF0004624=Homeobox=PU(47.4=49.1)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTCATCATGCGAGTGTTGG
R:
TGCCCTCTGATTCTGGAACCA
Band lengths:
258-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]