BtaINT0085450 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005525 | LHX6
Description
LIM homeobox 6 [Source:HGNC Symbol;Acc:HGNC:21735]
Coordinates
chr11:93088937-93090242:-
Coord C1 exon
chr11:93090159-93090242
Coord A exon
chr11:93089009-93090158
Coord C2 exon
chr11:93088937-93089008
Length
1150 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCCCTCCCCCCTCCCCCAGGTG
3' ss Score
13.64
Exon sequences
Seq C1 exon
ATGTACTGGAAGCATGAGAACGCCGCTCCGGCGCTGCCCGAGGGCTGCCGGCTGCCGGCCGAGGGCGGCCCCGCCACCGACCAG
Seq A exon
GTGAGCGAGCTAGTGAGTGGGTGAGCCGCCCGGGCCGGGGTCGGATGGGGCCGGGACCCAGCCGGGCCGGGCCGGGCGACGGGCGGCCGCGGGGAGGAGGGGTGCGGGGGTGCGCCTGGGAGTGTGTGTCTGTGAGTGTGTGAGCGCGCGCGAGCACGAGGAGGGGGGTCGCGGAAAGCGGGAACACATTATGCAAATGTTGGAGGAATTTCTCAAAAAGCGATTTAGCAAAGACACAGGCGAATCAAGAGGAGGCGAGGCGGGTATTGTCCGTCTGAATAGGCGCTGATAGCGCCGATGCGCCGGGGGTTGTGCCGGCGCAACGCTGAGAATCGCGGCGCGGGGCCGGTCCCGGGAGCTCCGAGGGGCTGGAGGGTGCTCGTTCCTCTTCTTGGACGCCTCCCTTTTCTTTTCTGGGCCCTGTTTCGTCCCCGATCTCGCCCCCGTTTTGCTCTGGGTTTTCCTAGGACTGGCCCTCGGAAAGCGCCTGAATCCGCGTCAGCATCTCCGCATCAATTTCGCCGCGCGCGCGGGGCGGACGGGCTGATGCTCCCAGCGCTCAGGGTTTTATTTTCCTCAAGCGCCCCTCCCCAATCTCTTTTTTATTTTCTTTCTTTCTCTCTTTTCTCCTTTTTGCATTTTGCGCCGAGAGGAGGAGAAGGGAGCGAGGAAGGGGGGTGGGTGGAGGGAGAAAAAATTCGATTTTTAATTACTACCATTAAAAAATCAAATTTGCAATTCTTTGGGCGGCCTGATGGATCTCACTGATTGACAGTTGGAATTGACACTCTGGCTACCTCTTATCTTGGGCATTCACGACAATTTCTAATTGCAGGTAGTTTGTGTGTGTGCGCGTGTTTTTTTTCCCCCTCAGAGGCTTGGATTGCAAGGGAACTAAGCGATTACTTCAAGAGCCACGGGTTAAGTGCAGGGAGAGGGGGAGAGAGAGGGAAAAAATCCAATCCAAATTCAAATTGCTTCATTAGAGAGACACCGCTTTTGTGGGGAAGGGCTTTAAATGCCCACTACAAAGTTAGGACTCATTGTTCCGCGCCGGTTTATATAACAGGCGCGGGGAGGCGCTGGGCTCAGGCTGCGCGGAGCCAGTGCTGCAGCCGCCGCCGCTTGCGTTCCCTCCCCCCTCCCCCAG
Seq C2 exon
GTGATGGCCCAGCCAGGGTCCGGCTGCAAAGCGACCACCCGCTGCCTTGAAGGGACCGCGCCACCCGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005525:ENSBTAT00000007266:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
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]
SPECIAL DATASETS
- Pre-implantation embryo development