GgaALTA1018433-2/3 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000003424 | LMX1A
Description
LIM homeobox transcription factor 1-alpha [Source:RefSeq peptide;Acc:NP_001244317]
Coordinates
chr8:5141844-5142702:+
Coord C1 exon
chr8:5141844-5142015
Coord A exon
chr8:5142516-5142597
Coord C2 exon
chr8:5142598-5142702
Length
82 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CCACCGGCCCCATCCCGCAGGCA
3' ss Score
9.89
Exon sequences
Seq C1 exon
ACGACGTGCCCTGGGGCTGCCGGAGCTGAGCGCCGCGTGTCCGGGCTGTGTCGGCAGGCGGGCGGTGCGGCCCCTCGCCCGGCCCGGCTCCTCACCATGCTGGACGGCTTGAAGATGGAGGAGACTTTGCAGAGCGCCCTGGACCCCGCCGCCCCCTTCTCCTCGCTGCTGG
Seq A exon
GCAGAGCCGCGACGCCCCGCTCCGTGTGTGAGGGGTGCCAGCGGGTCATCGCCGACCGCTTCCTCCTGCGCCTCAACGACAG
Seq C2 exon
CCTGTGGCACGAGCGCTGCGTGCAGTGCACGTCGTGCAAGGAGCCCCTGCACACCACCTGCTTCTACCGAGACAAGAAGCTCTACTGCAAGCTGGACTACGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003424-0-2,0-1,0-0-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0041217=LIM=PU(94.6=84.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTGGACGGCTTGAAGATG
R:
TCTCGTAGTCCAGCTTGCAGT
Band lengths:
180-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]