MmuINT0090920 @ mm9
Intron Retention
Gene
ENSMUSG00000028201 | Lhx8
Description
LIM homeobox protein 8 [Source:MGI Symbol;Acc:MGI:1096343]
Coordinates
chr3:153969258-153974687:-
Coord C1 exon
chr3:153974504-153974687
Coord A exon
chr3:153969970-153974503
Coord C2 exon
chr3:153969258-153969969
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
ENSMUSG00000028201-Lhx8:NM_010713:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.000
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: