GgaEX7006736 @ galGal4
Exon Skipping
Gene
ENSGALG00000003424 | LMX1A
Description
LIM homeobox transcription factor 1-alpha [Source:RefSeq peptide;Acc:NP_001244317]
Coordinates
chr8:5160764-5163624:+
Coord C1 exon
chr8:5160764-5160996
Coord A exon
chr8:5163273-5163442
Coord C2 exon
chr8:5163547-5163624
Length
170 bp
Sequences
Splice sites
3' ss Seq
TGTCTGTACCCCATCCCCAGGTA
3' ss Score
9.6
5' ss Seq
AAGGTATGG
5' ss Score
9.26
Exon sequences
Seq C1 exon
GTTGTTCGCAGTGAAGTGCGCCGGGTGCCTGGAGAGCATCGCGCCCAGCGAGCTGGTGATGCGCGCCCAGCAGAGCGTCTACCACCTGCACTGCTTCTGCTGCTGCGTCTGCGAGCGGCGCCTGCAGAAGGGCGACGAGTTCGTGCTGAAGGAAGGGCAGCTGCTCTGTAAGGGCGACTACGAGAAGGAGCGTGAGCTGCTGAGCTTGGTGAGCCCGGCTCTGTCGGATTCCG
Seq A exon
GTAAAAGTGACGATGAAGACAGTGTCTGCAAAATGGGCCCAGCCTCAGCGAAGGGAGCTGAGGAGGGGAAGGACCACAAGCGGCCCAAGCGCCCGCGCACCATCCTGACCACGCAACAGCGCAGGGCCTTCAAGGCGTCCTTCGAGGTCTCCTCCAAGCCCTGCAGGAAG
Seq C2 exon
GTGCGGGAGACACTGGCAGCCGAGACAGGGCTGAGCGTGCGCGTGGTGCAGGTCTGGTTCCAGAACCAGAGAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003424-'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=0.000 A=0.596 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=47.4)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGAGCGTCTACCACCTG
R:
CTTTGCTCTCTGGTTCTGGAAC
Band lengths:
243-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]