GgaINT0126304 @ galGal4
Intron Retention
Gene
ENSGALG00000000936 | LMX1B
Description
LIM/homeobox protein LMX-1.2 [Source:RefSeq peptide;Acc:NP_990689]
Coordinates
chr17:10149113-10149659:+
Coord C1 exon
chr17:10149113-10149190
Coord A exon
chr17:10149191-10149592
Coord C2 exon
chr17:10149593-10149659
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGTTCTTCTCTTTTACTCAGATG
3' ss Score
9.31
Exon sequences
Seq C1 exon
GTCAGAGAAACTCTAGCAGCTGAAACAGGACTCAGTGTGCGAGTTGTCCAGGTTTGGTTTCAAAACCAAAGAGCAAAG
Seq A exon
GTAGGTTGTTTCTCAAGTTCTCAAAAGTAAAATACGACTTGTTCTGCAACAGGGACTCCTTTCTCCCCCCCCCCAAGATGTCGAACATATCACAAAGATTCAAGGGACTGAACTATGCACGTTTTGCATGCGCTGCTATCTACATCCATCATCCATACCTGAACACGAGCATTAAGTTCATGTCCTCCAAGCACCACAACACTGGGAGTAAATTTTGCTTGCAAATATGAACTGGAAACTGAAATGTTTTAAGCTTAGAAATGAAACTGAACCCAAAGTGGTGTATGCATGAATATAAGTGGTCTATATTAATTGGTTTGATGTTTTCGGAGAATTTTGGAAGAAAAAAAAATTGGTTCCATTGAGACCCATGAGATTGTTCTGTTCTTCTCTTTTACTCAG
Seq C2 exon
ATGAAAAAACTAGCACGAAGGCACCAGCAGCAGCAGGAGCAACAAAATTCTCAGCGACTAGGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000936:ENSGALT00000001376:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(43.9=100)
A:
NA
C2:
PF0004624=Homeobox=PD(3.5=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]