MmuINT0090918 @ mm10
Intron Retention
Gene
ENSMUSG00000096225 | Lhx8
Description
LIM homeobox protein 8 [Source:MGI Symbol;Acc:MGI:1096343]
Coordinates
chr3:154316743-154321730:-
Coord C1 exon
chr3:154321627-154321730
Coord A exon
chr3:154316839-154321626
Coord C2 exon
chr3:154316743-154316838
Length
4788 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
GTCTTTAAAAACAACCACAGGTT
3' ss Score
4.07
Exon sequences
Seq C1 exon
GTAATGGGATTAGTGTGGAAGGAGCCCTTCTCACAGAGCAAGACGTCAATCATCCAAAGCCAGCCAAAAGAGCTCGGACCAGCTTCACAGCCGATCAGCTCCAG
Seq A exon
GTAGACGTGGCAATGCATTTGTGATTTTTGAAGCCCTTTCCCCACGAAAGAAAACAGACCTAAAGAAAAATTAAAAAGCAACCTCCATGCTGCCTGAAAATACTGTTTTCTAAAAGGTTGTACTATACTTTTTAAAAGATATAACTTTTCTATCTTTTATATATCCACGAGAGTGTTAATGTGTACTTAACTGCCTTGAAAGGTCATGGGGTGCAGTCTAGTCAGTAGTTTGGTGTCCTTCAGGTCTTTTGATGTCAACATCAAATGGGGGTACAATGTTGGTCTATTCCGGCTTCCACGAGCTCAGTCTAAGGCAGACATTTTTGATACAACAGAAGATGACTGTGTGGAGACTCAGCTGAAAGAGGCAGCGTCCAGGGCTGTGGGGCTCCAATGTGTTGTCATTTAACTAAATGACATGTTGCTTAATGTATAGAATTGCACGAATTTTGTCTCGAAAAGACCAGAGTCTGCCCAGCACAGACAGGAATCTACGGTTGACAGCAGTCATAAAGGGATGGAGGTGGCATTTTCTTCTCTGTGCTGAGGTTGACTCTGCCCTTGAAAACAGAGGACAGAACTTCCTTATCAGAGCTGTGCTGGCTCTGCGCATTAGCTCACCTTTGAAAACTGTCAAGGAATACACCCCATGCTTTGGATTTAAGTCTACATATGATGAGTCTTTCTGGCTTTTTCTATTTTCTTTTGGATCATGTTTTCTAGAAGATCAGCATGGCTGAGGTATTTGATTTGTGTTTAGATAAATAATTTACTACACCTCTTCCAGGGGCTGTGGAGTATGTTGTATATTTAGCATCAACTTCGGCTCAGAACCGAAGGCGATTGTGTCTTGTTTAACAAATAAAGGAAAAACCACTTCTAGTAGTCAGAGACTGGCCAGCATTTCAGACCTCTATAGTAAAAATGTTTCAGGAGTGGTATTTAAAGAATGATTCGAGGGGTAACCTGGATGTGACCAATGTTCTAAAAGAATTTGGCAGTAGACCAGACTCAGATTATTAAAATCTAGATCCATTAAGGAAAAAACCTCCAAGGACACAATTACTTTTATTAATTAGACATTAAGTCCTTGACCAATGAGTAAGACATGAAAAATGAGAGAATTGAGAGATTTCATTTCCCTTGAGCTGTGTTCCTCTGCTGCTCCCTGGAACGCTGGAGAAAATCACAGACAGCCTGGGTTTGAAGTGAATTCTTACCCGAGCTTTGCAGTCTGAACAGGTGGGCTGGGCTAGACGGAATGGCTAAGAGACAAATATCATATTGAAAATGCCTCAGAGACTTGGCCGTGACTTTGACAATTACAGGCTTCATAATTTGGATGTGAAAATTCCTTATTAAAATTATAACTGTGGAAGTTTGAAGTCATGGCAGGTATCTATACAATCTCCTGTGGGAAGATAATTACAGAAAAAAATATGGTGATTATTTGTGGAGGTTTATGTGGGCCAAGTCCTGTCCATATCATCTTCGTCTCCTCACCCATTCCAACAAGTCCTCCATGTAGTCAGCCTCTCCAAGGGCACAGGAATGACCCTCGAGGCAATCAGCCACTCAAGGGAATAGCAGAGAAAGGGCTCGGATGGACTTGCCCAACCTCTGTGCTTTTCATGTGGTTTTGCCTCCCAGGAGACCATGTGCTTCACCAGAACCCAGCAAAACAGAGAAGAGAAATCTTGAATTTTACAGACAGGCTTACAATAACAACTTGCGTTGTTCACAAAATACTTAAACCATGCATTTCTATATAAGAACATGGCTCAAACCATAAGCTTAAAAAACTGATCAGAGTGAGTTCTAGAAGTGAAAGCACGGTCTCAACTATTGAGCATTCGGTGGCATTGATCCTACACCCGCGCCTAAAGAACAAGAAAGCAGAGTAGCCACAGATAAACAAACAAACAAACAAACAAACAAGAAAACCCAAATCATTTCCTTCCACCAGATTATCTGATAAAAAGTATGATAATCACCTTGTCAAATTGTTTCAATTTTGAGAAAACTAAATGTATCCAAATATTGAATTCAACAAAATAACAATAATAAAAAAAAATCACCCATGAAAACTGATCTGAGACTGGCCATACTTGCTTTGGACAGAGGAGTGTTCACATAGGGTAACTGAAGAAATTCCCCAAATTCCATGTCAGAGTCTCACATGAAGAAAAGCTTCCAGATCAGAGGGGTATGGCTACAGTTGTATCTCAAACATGAGATACAGATATATCACAAGCAGAAGGAGGACACTTAAATTCCTGCTTGTGCCATGGTTCACTCCCAACAGCCAGCCATGTCCGGATCAAACATGCCAAGGTTGGCTCCTCCTCGGGTCTACTTTTGCTATCATTGTTCAGATGCTGGTACACACACTTTCCTGGATCTTGGCTTAGTGTTGACGCCACCAGGCTTTGCCTTGATCGTCCCCAGACAGCCCCCACTGGGCCTGGGAGTGGTTTGCAGTTGCTTGAGCATCTGCCAAATAGGGAAGCTACATAGAATTTAAAGGTCTTGGTTTTCTTTTCTTCTTTTTTCCTTCCTCCCTCCTTCCCTGTGTCCCTCCCTCCCCCTCTTTCTTTCTTTTTCTTTTCTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTCTCTTTCTCTCTTTCTCTCTTTCCTCCCTTCCTTCCTTCCCTCCTCGTTGTTGTTGTTGTTCTTCTTCTTTCTCCTTTCTCCTCCTCCTCTTCCTCCTCCTCTTCTTCCTCCTCCTCTTCTTCCTCCTCCTCTTCTTCTTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTTCTTCTTCTTCTTCTTCTTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTCTCTGACTGAATACTGGTACTAGCTAAAAGAATAGCAAAGTGCCCTATTTTCCTTAGAATAATTCTGGTTCCTAATGGCCAGGGTGGATTTAAGTTCCATTTCCTTCCTTGATGGATATCTTTGCTAAATGTATGTTGGTTCTATTATTAAACTTTTACTTCCAGAGGTCTTTTTCTTTTTAAACCAGCTAATCAGTAATGACTTGGGAGCAAATCCCCAAATATCCCTTCTGCTTGATCTTCCTGGGAAATTAAAGACATGATCAATTCACTTGCCATTTGTCTTTGGGATGTTACCCCCAAGTCAGCAGACACACACACACACACACACACACACACAAGCACAACTGGATAGAAAAGCAGCCCCTTGGATTAAAGAATGGTAGAAAGAAGGGATATGGAGTCCATTTTCCAATGTCTTAAAATAAGAACAAGTCTATAATCCTTTTACAATGAATCTATCAATACAGTTTTAGATGGGAAGCTAGAAGCCCTTGATTCTAGAAGAGTTCTAACCCGTGGCATCTTAACTGAGGGGGTCATTTGCAGTCTCAAAATGTTTCTGGACTTTTTCTCCATGCTCTTGAGACTTTCCTCATATTGTCAAGGTTCCACTGAAGAGTACATTGCATCACAGGCAACACAGGCAAGCAGAGAATGCAGCCGCACCGCCCCCTACCCACTAAGGAGGGTAATGCAATGCAAAAGGATGCTTTTCCCTAGCCAGAGTGAGGGACTTTGCAAAGTAAGCTGTTGGTCTCCTTGTGACAAGTGAAGAGACAGAAAGCCGGCCAGCGCCAGCAGGAGCAGGCCAAGACAAAGCTCACACTGCCTGGGGGAGGTGGGCAGCAGGGTGAGGAAGTGGGTGCTCACCAGTTCACACCATTTAGGGCAGCAGGGACCAACACAGTGGGGAAGTGGGTACTGCACTGACAAGCACAGCCTACTGAATGCCCTATTTTTAGTTAATTATCTTTATCTCATATTCCCCTCAGCTGACTGGCTTTACATAATAAAATTCAAAATTACTGGATTCTCATGAGTCCCTCATCCCAGGATCCAAAAGCCTTGACCTCGACGGTTCATTTCCCTCTTTCCATCACTGTTAATTAGAGAGGATGACTGGCATTTCTATATTTTTCTTTTAAGAACTTAAGATCAGGACCCCCTACCCCCACCATATATGAATGTACATATGTCACAGCACTTGGCATAATGGTATCAATCCAGAATGTCCCCTCTGAATCGATGGACTCTGCTAAGGTCTTGTTGCATGGACTAAAGTATGTCTCTCCTTTTTAAGATCTTAAGAGGTTGCTTCCTGCGAAGCAAACACCCTCCACCGTCCCCTTCCTTTCCCCTCCCCACCCCACAGCAGTGGCATCATTGCACTATGCTGTAATCCATCTCTGCAGCACTGTTTGTAGATCAACAACAACAAAAAAAAAAAAAAAAAAAAAAAACAATGTAAGAGCCCTTGAGGCTGTTGAGACCCACAGAGGCTAGAGATAACTATGGTGGGACTTGAGTCTTTTGTTGAGTCCCAGTGCAGGGATATTTTACAAATGGGAAGCCAAGGGTGGGAGAGTCAGCTCCTGTGTGTTTTGGGAGTTCTGAGACTGGGTGGAGAGAGGGTAGTGTCTCTAATGGCAGAGCTGAGGGGCAGAGTTTCCAGGCGGTTAATTTTTAAAGATCTTAGAATAAGAGTTCATGTAAATTTACAAAGCACGCCTTTCTTTTACTTGTGTTCGCTGTATTCATTTTCAAATACCAAAATACACAACACGTTTTTCTTTGTGTGCCTTAATCTGTTCTACCATCAGAATGCAAAAGATCAAGCTTTTAACTGTTTGCTCCCGACATCTGTCTTTAAAAACAACCACAG
Seq C2 exon
GTTATGCAAGCACAGTTCGCTCAGGACAACAACCCAGATGCACAGACCCTCCAGAAACTGGCAGAAAGGACAGGCTTAAGCAGACGTGTCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000096225:ENSMUST00000177846:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.443 A=NA C2=0.469
Domain overlap (PFAM):
C1:
PF099434=DUF2175=FE(33.7=100),PF0004624=Homeobox=PU(21.1=34.3)
A:
NA
C2:
PF099434=DUF2175=PD(20.8=65.6),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
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types