DreINT0089795 @ danRer10
Intron Retention
Gene
ENSDARG00000068365 | lmx1bb
Description
LIM homeobox transcription factor 1, beta b [Source:ZFIN;Acc:ZDB-GENE-050114-2]
Coordinates
chr8:33268777-33269392:-
Coord C1 exon
chr8:33269315-33269392
Coord A exon
chr8:33268844-33269314
Coord C2 exon
chr8:33268777-33268843
Length
471 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTTATCGTTATTTTTTCAGATG
3' ss Score
10.07
Exon sequences
Seq C1 exon
GTAAGAGAGACACTGGCTGCAGAGACAGGTCTGAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAG
Seq A exon
GTGAGTCCAGGTCTTGTACACTACAATATGAATCATCCAGTATTACCCGCGCAAACCCGATAATGTACATCCAAGGAGCAGATAACACAACAATTTGCAAGTAATCCTCCAACAACGCACTAAACTCCTCGCAAACGCTGCCAAAAGGGAAAGAGCGAGTGAGTCTCGAGACAGCAAATCTCAGTCGCTATCTGCCTGAAGCTTAACCTCTCGACGCATTCCACAAAAAACTCCCCAAGAGTTCGCGAGAGATGTATTCACATCCATCCTGCTCTTACGTTAGCGTCTGAAACCCACCTCAGAGCCCTGATTTTATCTTCAAAAGGCTGTGGATAATATAATGCAGCCAGATCAAGCTTGGCGTAGTTCAAGCAGGGGTGAACAACAAGGAGCATCTCTCTTCAGATAGCCCAGAGTTGGTCTGGGGAGTCGCGAAGTTTTCTGATTGTGCTTTTATCGTTATTTTTTCAG
Seq C2 exon
ATGAAGAAGTTGGCGCGGAGACAGCAGCAGCAACAGGAGCAGCAGAACTCCCAAAGGCTGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068365:ENSDART00000076420:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 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
Associated events
Conservation
Chicken
(galGal3)
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]