HsaINT0091750 @ hg19
Intron Retention
Gene
ENSG00000162624 | LHX8
Description
LIM homeobox 8 [Source:HGNC Symbol;Acc:28838]
Coordinates
chr1:75609530-75614367:+
Coord C1 exon
chr1:75609530-75609633
Coord A exon
chr1:75609634-75614271
Coord C2 exon
chr1:75614272-75614367
Length
4638 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATACATGTTTTAAACAACAGGTT
3' ss Score
5.24
Exon sequences
Seq C1 exon
GGAATGGGATTAGTGTGGAAGGTGCCCTCCTCACAGAGCAAGATGTTAACCATCCAAAACCAGCAAAAAGAGCTCGGACCAGCTTTACAGCAGATCAGCTTCAG
Seq A exon
GTAAGCATAACAATGAATTTTTTATTTTTGAAGCCCCTCCCAACCAAAAAAACAAAAAGTAACCTCCATGCTGCCCAAAAACATTTTTATGTTTTCTAAAAAATTAGCCTATGTGTTTTATGAAAACTAATTTGGTGAATATATGAAAACATACTTATTGCCCTAAAGTGTTTGCATTTCTAGCATCATAATATAATATGAAATAGTCATTCAAGTTTTGTTTCCCTGGGGTCTATTGGTATCAACATCAAAGTGGAAACAAAGTATTTTGTCCTGACTTCCTGATTGCATCGTTCTGAACCAGGCATTTATATTACTACACATAATTGCAATGGAAGACAAAATATTTTGAGACTCTGAAGAGAGACATACATGTCCCATGTGAGTCTATGGGACGCTAATGTGTTAGTCTTTGTAACAAACTGCAATGAGTCATTTAATGAACACAATTGTACAGTTTTTGAGTAGGAAATAATTGAAAGTGCCTTAAAGTAAATAGGAAACTACTGGTTGACTACAATTGAGCAGATTCCTTTATGTTTTTAAAGGTGGTAAAGGGAGTACTTCTATAATTTGATATTAAAGTTTTATTATGTCCCCTGAAAAGGGAGGGATTTTTTTTAGCTTAGTTGCCCTAAACATGATTGTTATAAATTTGATTTATACAAATTATCAAAATAATTAAATTACTCTTTGCTTTATAAACCTATATAATGATTCCTTCTGGCATTTTTGCAGATAATGAAATCATATTTTCTAAAAGATTAATGTGGCTGAGGTATTTGTTTCATGTTAAGGAAAAGTAACATTTGTTGAACGCCTATCACACTGCTGGGTACCTTATACATAGTATCCATCTTAGCTCAGACTTTAAAGGACATTTATGCAGTGTTAACAAATGAATAAAAGTAACTTTTTCGAAAATCACGTTTAGTATTCTAAGACCTGCCAGTATTTAAGATGGATACAAGTGTTTCAGGAGATAATTTTTATTTTGAGAATGATTTAGAAAAGAAACCTTGATGTGACACACATATTCCAAGGGAACGTGGCAATGGGAAGCACTCTAGCATTAAAATCTAGATCCATTCAGAAGAATTTTCCAAATGGATGATTGTTTCAGATTTCTTAATTTAGGCATAAATTCGATTTCTTAATTTAGGCATAAAGTACATAGTCAATAAGCAAAAAATGAAAGATAAGCCAATTGAAAGAAATATCTCTGTTTGAGCCTTGCTTTCTGGGTTCTTCATTGGATTATTATGAAGATCACACAATGCCCTGTCAGAAGATGTGAGTACTTCTGAAAGACCTGGAAAAATACTCAGTCACTAAAGGTGTCTAGTTAAAATAGAATCTCTAATATAAATCTGTTTTCACAATGGTCTGTTCCCATGAAGGACTGGCTGTAATTTTAATAATTACAAGGTTGATAACTTTCATTTGATATAATAATTTATTATTAAAAATAAAATTGTGAAAATTTGAAACCACTGTAGATAGACACTTTTCTATGGGAAAATAATTACAAATACTAATTAAATAAAATGGGAATAATATTTGTGGAGGTCTTTTTATGCCAAATCCTATACCAGGCATTTATCTACTTTATCTCCTTTAACTTTTACAACAAACCTCATTCAAGAGTGCAGGAACTCCTCAAAGCAAACCACCAAGGGAGTGGTTGAGAAGAGATTTGGAACCTTCTCCTCAAACATCTGGTCTCTTCATTTTGCTTGATCTTCCAGGAGACCATGAGTGGAAGTCTGTCTTATCAAAACTCCAATTAATAGCAGCAGCAGCTAAAACAAAAGAGTGAGATTTTGAATCTTGTAGATAGCCTTATGGTTAAACATGCATAAAATATTTAAGCCTTACATTATGGTATGTAAATGTGATCTAAATCATAAGTTTTAAAAATTGTATATCAGAATTATAGGTTTTAAAAAATGAAAGCATATTACCATTTTCAGATTACTGATGAAAGCATAGGTAATATGCTTTCAAAGTATATTCTCATTCAATATTTATTAGCATTTTATCTTATGGAAGGGGTGGCTGAAACAAATGAGATACAATCTTTGTCCTAAAGTGGTTCTTTATAATTTAGGAATCTGAAATAGATATTTTAAAAAACTGAATCATTTATTTTAGCCAGACACTCTAATAAATCGGTATCCTTATTGTCAAACTCTCCTACATTTAGGAATGCTGAATATTTTCAACTAGAGCTTGAATTTGGCAAGATAATAAAATATTACATGTGACCAGTGAGTAAGTCAAGACTATCTAGTCAGTACCTGCTTTGGACAGAGGAGAGTTAAAATGGAAGGGATAAATAAGAAAATTTTCCAAAATTATTCTATAGAGATTTATGGGGAGAAAAAATAGTTTAAGACTCAGAGGATGTATTGGCAAATATATTTCAAATACCGTCCCATTTGTAGAAATGATATTTAAGAATTTCCTGCTAATATTATGGATTGCTTATTCTATGTAGAAGCACTCACTTAGTGATTATTAATATTAAACACGCCAAAGTTAGCTCCTGCTTTAGTCTGTTTTCAGATCGAGTTACTGCTATGCAGCCTCCTGACTTTTCTGGTAGATCTCCTGGCCTAAAAATGATGAGTGTCTACAGAGGCTCACTCCTTGTCCACGTTAGAAGAACTTGGAAAAGGAGTGAAGTAGGCTTCAGCAGCATTAGTGCCTAGAGAATAGTGAAACTAAGTAGAAATTAAAAGTACCTCTTTTTTCTTTTTGTGTGTGTGAGACTAATCATTGATACTATTGAAAGGAAGAACAATCAACTCATCTTACTTTTCCTTTAGAATATTTCAATTCTAAATGATCAGAGTTGTTTTGCTTTACTCTTTAATGAGAAATTACTTAACTAAATACAATTTGATTGCAGTTAAATTTGTGAATTTAAAAATGCATTTATGAAAGGCATGAAGTTTCTGTTTTGTAAATTATTAATAATGACCTTACAAAATCCCCAAATCTGTTCAACATTTTTCTATTTGAAAAATTAAAAAACAAAGACATAATTTGCTCGTTCTTTTTGGGGTTATTACATGTTCAACTGCATAGAAACATAACTCTATTTTCACAGGAAGATACCAAAGTAACACATTTGGAGTAGGAAAGAAAGAATAAAGTGAACTGAGCAAGAATAAACTTTTAAGCCAATTCTGCCCTTTTTTAAAAGCAAAAATCCATGTTCTGTTTACAGTGAGTCTGTAGATACAATATAGTTAGATGGGAAGCCAAGAATACTTAATTCTAGAAGGGTAAATTTGTAAATCTCAAAATTTGTAAACCTCAGAAGGTTTCCCAGAACAATATTGGCCTTTTTTTCTACACTGTCTTCAGATTTTCCTTACATTGCCAAGTTTTACTCTGTCAGAAACTCTTAACATACTCTCTGACAGAAAGGGAGTTTAACTCCTAGGGATACGAAAAATAAGACATTCCCCTTGATCTCAAGGAACTCACTTTCCACTATGGAGATAAACTTGAAAACAAATTATTTAGCTACCCTGTGACAAGTGCAGTGGCAGAAGATAGCATTATATGAGGAGCATAGTGGAGAATGCAATTAATTTTGCCTGCTGAAAAGAGTGAAGTCCAGCAGTGCTTGAGGTCTTTAATAGATTGGTTACCCACATCCTATGCCTGTAGACAAGCACAATCACATTGGGTGCCAAGCTCTTCTCTCTCATTCTTCATAATAATACATTTTTTACATTTTGTAATGCTTCCCTCAGTTGACTGACTTTTAGTAATAAAATTCAAGTATCTCACTTAATTCTCATAATGATTCTCTTTTCTGAAAGAATTCAAAGTTTTTGGCTTGTGCTTATATTCTGGTACTCTCTCCCACACTACTCTTCTCCCTTTATCTTTTATTATAGGTAGTCATTGGCATGTCGGCATCTTTCTGCCAGGAAATTAAATCCAAAGAGTTTTGTTTCATGTTTCACTATCTCTTAGCACTTGGCATAGTGGTTTCAATCCAAAGGCTTACATCAGAATCACCTGTAAGCTTTTAAAATATATACATGTTTAGACTCTGGTAAATTCTTATTCAGTGGACTGGTGAGTGTCTCTTTTTAGACACCTTTTTTTTTGCATAGAGCTAGTGCTCAAAACTATGATGGAGTTGTTACAATTAAGTGGAATCCTTCTGTTGATCTGTATACTATTAGGTATTAGGGGCCTTGAACATCTTTAGCTCAGGAAAGGTTGGAGACAAATGTGATATGATTTTTGTATTAAGTTTTCAAATGTTGGCAGTTTTTAACAAAATGGAAAAAACAATAAATGAAACTCTTGCTATTTGATTTGTGGGTTATAAGATTGAAAGAAAAGAAAAGGTGAGCTTATTTTTAACAGCATAGTTGAGAGAGTTTTACATTGAAATGGATTTTTTTAAAGTTCTCAGCATAGCAACTTGTGTATAAATTTACAAAATATGCATTCGTTTTCACTTACCCATATTTCCCCATACCGATTTTCAAGTAACAAAAGTATCCCATGTTCTTGTGCATGTCTTACCTCTTATGATAAAAATGCAGGAAGAAGACTGAGCTGCTTGTTTTTAGCTATTTACTACATACATGTTTTAAACAACAG
Seq C2 exon
GTTATGCAAGCACAATTTGCTCAGGACAACAACCCAGATGCACAGACACTCCAGAAATTGGCAGAAAGGACAGGCTTGAGCAGACGTGTGATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162624-LHX8:NM_001001933:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.514 A=NA C2=0.531
Domain overlap (PFAM):
C1:
PF099434=DUF2175=FE(34.3=100),PF0004624=Homeobox=PU(21.1=34.3)
A:
NA
C2:
PF099434=DUF2175=PD(19.2=59.4),PF0004624=Homeobox=FE(54.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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)