MmuINT0090920 @ mm10
Intron Retention
Gene
ENSMUSG00000096225 | Lhx8
Description
LIM homeobox protein 8 [Source:MGI Symbol;Acc:MGI:1096343]
Coordinates
chr3:154306294-154311723:-
Coord C1 exon
chr3:154311540-154311723
Coord A exon
chr3:154307006-154311539
Coord C2 exon
chr3:154306294-154307005
Length
4534 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
CATCTCTTTCTGTTTTGTAGCTC
3' ss Score
9.31
Exon sequences
Seq C1 exon
GTGTGGTTTCAGAACTGCAGGGCCCGCCATAAGAAACACGTCAGTCCCAACCATTCTTCCTCAGCCCCCGTCACAGCTGTCCCCTCCTCCAGGCTGTCCCCACCCATGTTGGAAGAAATGGCTTATTCTGCCTACGTACCCCAGGATGGGACGATGCTGACTGCGCTGCACTCATACATGGATG
Seq A exon
GTAGGTAGCACAGCTGGGAGCTTCTAACCCCTTTGTTGATCTCATTCACGTCTTGAAAGATTATCTCGGTCATGGATGAACAGCATTATAGCAGGTACAGAAGACAGTAATTGTAACCAACTATTAGTTTAACCCTCTACTGCGAAGCCACAGATATAAGTGATGACTCAGGACTTGGGTGGTTTTGTTTTGTTTTGCCTGTCTTTTCCTCTGTAGCCCTGGTACTGTAAACCTGCGCCATCCTGCCTAGAGTTGTTATTTGTTTCTGTTTTTTTATTTTTATTTATTTATTTATTTATTCACTTTATATTCCACTCACTGCGCCACTCCTGGTCACTCCCTCCCACAATTCTTCCCCCATTCCCCTCTCCCCTTCTCCTGTGAGTGGGTGGGGTGGGGCCTCCCTAGGTGTCCCCCTTCACCCTGTCACCTCAAGTCTCTGTGAAGCTAGGCACTTCCTCTCCCACTGAGGCCAGACAAGGCAGCCCAGCTAGAAGAACACATCCCACATGTAGGCAACAACTTTTGAGATAGCCTCTGCTCCAGTTGTTTGGAACCTATATGAAGACCAAGCTGCACATCTGCTACATATATGCAGGGAGGCCTAGATCCAGCCCCTATATGTTCTTTGGTTGGTGGTTCAGTCTCTGAGAACCCCCAAGGGTCCAGGTTAGTTGATTCTGTTGGTTTTCCTGTGGAGTTCCTATCCCCTTCAGGGCCTTGTAATCAATCCTTCCTCCTATTCTTCCATAAGAGTCCCCAAGTTCCATCCACTGTTTGGCTGTGGGTGTCTGCATCTGTCTGAGTCAGCTGGTGAGTGCAGCCTCTCGGAGGACAACATGCTTCTGTCTGCAAATATAATAGTGTCAGGGAACGGTGCTTGCCCATGGGATGTCTCAAGTTGGGTGGGTTATTGGTGACCATTACCTCACGCTCTGCTCCAACCCCCATCCCTGCATTTCTTGTAGACAGGATATGTTTCAGGTTGAAAGTTTTGTGGGTGGGTTAGTGTCCCTGTCGCTCTCCTGGGGATCCTACCTGGGCACAGGAGGCAGCCTCCTTAGGCTCCATGTCCCCAATTCTGTGAGTCACAGCTGAGGTCACCCCCACTGATTATTGGGTGCCTCCTCTATCCCAGGTCTCTCTCTCTTCCTGGAGAGGCCCCCCACCTCCCTTCCCTGTCAGTTGCAGATTTCCATTCTCAAGGCCATTCGGCTATCATCCTTGCCCTTCTCCATACCTGGCCCCAGGCGCCCACTCCCCTCCAATCCCCTTTCCCACCCAGTTCCCTCCCTCCATCTGCCTTCCTTGGCCATTCCATTTTCCCTTCCAAGTTGAACTCAAGCAACCTTGCTCCAGCCTCTTTAGGTCTGTGGGTTGGAGTGTGGGTATCCTGTATTTTATGGCTAATATCCACTTGTAAGTGAGTACATACCCTGCATGTCCTTTTGGGACTGGGTTACTTCTCTCAGGATGGCATTCTCAAGATCCATCCATTGATTTTTGCTGGCAACATTTTGTGTTTCTTTCTTTTCATTTTTTAAAGATTTCCTTTATTTTTATTCTATGCATATACGTGTTGCCTGTATGTATGTCTGTGCCACGTGCATAAAAGTAACATAAGAGGCCAGAAGAGGGCCTCTCTCCTGGAACTGGAGGAAGATGGTTGTGAACCACCATGTGGATGCTGGGAATTGAACCTGGAAGAGCAGCCAGTATGCTTAACTGCTGAGCCATCTCCTTGGCCCCTTTTGCTTTGTTTTCAACTAAATAAATATTTAAATAATTTACTTTTCTATGCTCAGAAAGGTTGACCTTTCTGGACTGGAGGTTTCTGTTTTGTGTTGTCTTGATTTGTTTGGTTTTTTGTTTTTGTTTGGTTTGGTTTTGGATACACACACACACACACACACACACACACACACACACACATATATATATATATATATATATATATACATATACATATACATATATACACACACATATGTATATGTATACATATATACATATATGTATATGTATACATGTATACACATATATGCTTACATGTATACACATGTATGCTTACATGTATACACATATATGCATACATGTGTACACATATATGCATACATGTATACACATATATACACATATACATATATACACACAAATATACACATATACATATATACACACATATATATAATTTTTTCTTAATTGAAGTCAATCATGTATAAAGCACTCAGAAGTGCTGGGCATGGTACTTGCCACAATGAGCACGCCTCCCCTCCCCTCCTCCCCACTCCTCCTCTCCCTCCTCCCTCTCCTTTCCCTCTGTCCTCCTCTCCCCTCACTTCTCCCCCACTTCCATGGAGTGTGAGAGTCCTCAGTCTTGCTGATTTATTATACAGAACTCCACTTGAGGGATCGTTTCATGCCTGTTCTGTGGTTGATAATTTTTTTTTGTGTTCCAGTTTGGGTATTTTAGGAACATGCTACTGTGGATTCTCTCGCATGCATCTCTTGGTACCTGTTGAAGCTTCTCTCTGGTCTATGCGTTGGTTATGTGTGAGGGCGTAGCTAGAGCAGTTGCTCTACTTCAGGACATTCTACCAGAAGCTTCACACTGTGGTCTGACCAGCAGCAGCATGAGAGCCCTGAAGGTCCCCACAAGCACTGAGCATGGGTCCCTTCTCCACCCTGGCCAGTCTGGTGACCATGAGGTTCCAGCTCACGTTTACCAGCTTTCCCCCATGACAGACAAGATGTCCCCAGCTCCTTGGACACCTGTTTAACTCTCGTGAAGACCCCCCATATCTATTTAGTTACTCGCCTGATGGTTTCAATTTTCAAAAAGGATTTTATTTCTTGATTGTTATCTATGTATAAAGCTTTTCATCACAGCACACATTGGAAGTATCTTCTGCTTAGAGGCTCTTCTAGCTTGTTTGATGCCTTGCATTAAAAGGACCCCTTATTTAGCCGGCTATGGTGGCATAGGCCTTAATCCCACCACTCAGGAAGAGGCACGGGCAGGTAGATCTTCGAGTTTGAGGGTAGCCTGATCTAGAATTCTGGGCCAGCCAAGGTTATATAGTGAGACTCTGTCTCAAAAAATTATTTTTGGTCAATGCCGAAGATTTTTTTTTTACATTCAGGTTTTTTGATCTTTCATTTTTAGTGTATTTCCTTCCAATTCATCTTCTAGTTCACAAATTCCCTGTGTATGTAAGAGCGGCAGGCTTATCCATTGGCTTCTTCAGATGCTGTGTTCCTCAGCTTGACGACTCCCATCTGTGCTGATATCTGTCTCATTGACCTCTTAGTCCTCATGTGAACAGTTGGATTATCCACGTTCACATGGGGGCCCACACTTGATGGCTCCAATGTTTGGGCCTTTTCTGCATCTTCTCTGATGTTTCTCCTCTGTTTTTAGTCAAGCCAAATCTTATTTCTTGCCAAAACAAAGCAAAACAAACAAACAAATGAAACAAAAAAAAATCATGAAACACAAAAGCACTTTATTTCAGATGTTAGGTAAGAAGAAATACCCAGAGGCTCCGGATGGTCTTTCTGCAGAGATGACTATAGCTTCCTGAGGTACAAACCTGGGCTACAGGAAATCACCATAAACACAGTCCTTGTGAAGCAAGTCTGCTTTGGCTTCACAACATTTGACACTGGGATCCCAAATGAGGGACTGTGTGTGTTTGATTTTTGTTTGTCCACTGCCCCACCAAAGTCCCCCAGCCTGAGAGACGTTCCTCTCTGTTGCATTTGTCAGTGTCTCTGTCAGGAAGAAACCGTCTTTCCATTCTCTCCTCTCTTTTCACTGGAGTTGGGAACTCCCCACTCCTTGGGTATCATCCTAGCTCACAATATGGTCACTACCTGGCTCTCCTAGTTGCTCCCAAAGGGAAGTTTGGGTTGAAAGCAGCATGGCCTTGGCTTTAAGTTTTTTGTTAAAAACCAACAAACAGCCCGTAATATCATTGTGCCATGCGATCATGCTACTGTTGGAACTGTGTGTGTCCTTTAAGAGACTGCAGTGCTACCCAAGACAAACATGTTTAGATGCCAGCAGAGCATGGGGGTTTTCACCTGTAACCCCAGGGCCCTGGACACTGAGGCAGAGGAGGACCATGAGTGTAATTCAGGGAGAATGCACTCCTAAGGGGAACCTGGGTGTACCCGCACACCCTGATATCCGCACAAAAGACAGGCAACGTCTTCACACAGGGCTCATGTACCTTTCTCACTGAAGGGCAGGGGTAGTGAATGACACAGGGATGGAGCACACCACCATGCCCAAAGATGCTAAAGATGGGGTGGCTAAGGATCACCTGGAAGCTTAGTTGTTCACTCCCTGTAGGAATGAGTCAGCAGTCCTGCTGAGGTGGGAGAGTGACCTCTGCTAGTGTCTGATACCTAGCTATCAGGTGAAACCGATGCCCACCCCCGAGACAGTGACCTTGACATGCTCTTGTGTGTTTAAGCCGCTCTCAGTCACGCTAAGGAACTGATAGCCACATCTCTTTCTGTTTTGTAG
Seq C2 exon
CTCACCAACAACTCCTGGACTCCAGCCCTTGTTACCCCATCCAATGACCCAGCTGCCAATAAGTCATACCTAATTCCTTCTTTCAGGGATAGAAATGATTGAGGTTATAAACTTGTCATTTATTATGTATAAAATACCATTGAGAAGATATTAATGTTAATTTTTTATTTAACACTCAAAGCATTTCGAACATCCTCTCGCTGCCCAGGTATGTATCTAGAGTTGGCCTGCAAGACACTTTTATTGATTCTTCATTTTGGTTTTTTTTTGTAAAACTTATGTTTACAAAGAAGAAAACAAGTCAAAACATTTTTTTTTGTATTGTCTGGAGATAGTTGGCTCGAGTGTGTGTCTATTAACTTATTTGTCACCAAAAGAGCACTTTGCCTGAAAGGCAGGACTGATCGTGTGCAAAACGTTTACAATCCTTTGTGAAACTGTAGTTTATCATTAGTTTGTACCTGTAAGTTATTGTTATAAATATTATCTGTATTTTTTGTCATATACAACTTTATACCTTGAAGCTTGTATCTGTGAATTTGCAACTGAAATTTATTTTGCCAGTGTTTTCGGGACAAGCTGAAGGCACGTCCGTTGTAGCATGCCGCGCACACCCACGGGGTGCCTGCACTTGGAGTTCTAGCTGTAAATAACACTCTAGTTTACAAAGCCTACCATCCTAAGTTCATTAAACACTTTGCATCCTTGTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000096225:ENSMUST00000177846:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.450 A=NA C2=0.348
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(19.3=17.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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