HsaINT0091734 @ hg19
Intron Retention
Gene
ENSG00000106852 | LHX6
Description
LIM homeobox 6 [Source:HGNC Symbol;Acc:21735]
Coordinates
chr9:124989688-124991019:-
Coord C1 exon
chr9:124990936-124991019
Coord A exon
chr9:124989760-124990935
Coord C2 exon
chr9:124989688-124989759
Length
1176 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCCTCCCCCCCTCCCCCAGGTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
ATGTACTGGAAGCATGAGAACGCCGCCCCGGCGTTGCCCGAGGGCTGCCGGCTGCCGGCCGAGGGCGGCCCCGCCACCGACCAG
Seq A exon
GTGAGCCGGCGAACGACTGGGTGAGCGGCCCGGGCCGGGGTCGGGCAGGGTCCGGGACCCAGCCGGGCCGAGCAGGGTGGCGGGCGGTTGCAGGAAGGAGGGGTACGAGGGTGCGCCTGTGAGTGTGTGCTTGTGAGTGTGGGAGCGCGCGCGCGAGCGGGGGGGGGGGGTCGCGGAAAGCGGGAACACATTATGCAAATGTTGGAGGAATTTCTCAAAAAGCGATTTAGTAAAGACACAGGCGAATCAAGAGGAGGCGAGGCCGGTATTGTCCGTCTGAATAGGCGCTGATAGCGCCGATGCGCCGGGGGTTGTGCCGGCGCAGCGCTGAGAATCCCGACGCGGGGCCGGTACCCGGCGCGCCGAGGGGCTGGAGGGTGCTTTTTCCTCCCCTTGAGCGCCTCTCTTTTCTCTTTTTGGTCCCGTTTCGCCCCGATCTCGCTCTCTTTTTGCTCCGGGTTTCCCTCCGACTGGCCCTCGAAAGGCGCCTGAATCCGTGTCAATATAGCTGCTTCAATTTCGCCGCGCGTGTCAGGCGGGCGGGCGGGCGGGTGCTCACCGCGCTCGGGGTTTTCTTTTCTTCAACCACCCTCCGCCCCTCACCCATCTCTTTTTTATTTTCTTTCTTTCTCTCTTTTCTCCTTTTTGCATTTTGTGCCGAGAGGAGAAGGGAGCGAGGAAGGGGAGTGGGGTGGGGGGGCGGGTGGAGAGAGAAAAAATTCGATTTTTAATTACTACCATTAAAAAATCAAATTTGCAATTCTTTGGGCGGCCTGATGGATCTCACTGATTGACAGTTGGAATTGACACTCTGGCTACCTCTTATCTTGGGCATTCACGACAATTTCTAATTGCAGGTAGTTTGTGTGTGTGTGCGCGTGTTTTTCTTCCCCCCTCAGAGGCTTGGATTGCAAGGGAACTAAGCGATTACTTCAAGAGCCACGGGTTAAGTGCAGGGAGAGGGGGAGAGAGAGGGAAAAAATCCAATCCAAATTCAAATTGCTTCATTAGAGAGACACCGCTTTTGTGGGGAAGGGCTTTAAATGCCCACTACAAAGTTAGGACTCATTGTTCGGCGCCGGTTTATATAACAGGCGCGGGGAGGCGCTGGGCTCAGGCTGTGCGGAGCCAGTTCAGCAGCCGCCGCCGCCTGCGTTCCCTCCCCCCCTCCCCCAG
Seq C2 exon
GTGATGGCCCAGCCAGGGTCCGGCTGCAAAGCGACCACCCGCTGTCTTGAAGGGACCGCGCCGCCCGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106852-LHX6:NM_014368:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.536 A=NA C2=0.126
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Rat
(rn6)
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
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)