MmuINT0050109 @ mm9
Intron Retention
Gene
ENSMUSG00000023391 | Dlx2
Description
distal-less homeobox 2 [Source:MGI Symbol;Acc:MGI:94902]
Coordinates
chr2:71381465-71383625:-
Coord C1 exon
chr2:71383441-71383625
Coord A exon
chr2:71382982-71383440
Coord C2 exon
chr2:71381465-71382981
Length
459 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTCCTTTTTTTCTACAAAGGTC
3' ss Score
10.03
Exon sequences
Seq C1 exon
ACAAGGAAGACCTTGAGCCTGAAATCCGAATAGTGAACGGGAAGCCAAAGAAAGTCCGGAAACCACGCACCATCTACTCCAGTTTCCAGCTGGCGGCCCTTCAACGACGCTTCCAGAAGACCCAGTATCTGGCCCTGCCAGAGCGAGCCGAGCTGGCGGCGTCCCTGGGCCTCACCCAAACTCAG
Seq A exon
GTGAGCAAGGTGGGAGATGGCCTGCTTTCTCTAGGAAGCGGGCACGTCCGGAACAACTTTTCAAAAGTATATTTTCACCTGTGCTTTTTTATTCCGGGCAAAGTAAACTTCTAGGCCCAATGCTTAAAACAAACAAACAAACAAAATAAGAAATTTTTTTCAAAGGGGGCAGCCGCATGGGAGGAAAGAAAATGACCCGGGTGGACAGAAATCCCACACTACAACGCCTTTCCACTCGCTGCTGCTAAAGCGGGTTCCATAACTGACCTGACACCGCACTACCCAGAACCTTGGTCACATACTTAGAGCTCATCCATCAGCATTTTGAGATCCCCCCAATGTAGCTAGAAGCAGCGGAGGCCCAGAGCCCAGGTCTGCTCGCCCGCCGTCTCCACTCCACCAACCTCCTGCCCAGGTTCCTGTACTAAAGCTCAGGGCTTTTCCTTTTTTTCTACAAAG
Seq C2 exon
GTCAAAATCTGGTTCCAGAACCGCCGATCCAAGTTCAAGAAGATGTGGAAAAGCGGCGAGATACCCACCGAGCAGCACCCTGGAGCCAGCGCTTCTCCTCCTTGTGCCTCCCCGCCGGTCTCGGCGCCAGCATCCTGGGACTTCGGCGCGCCGCAGCGGATGGCTGGCGGCGGCCCGGGCAGCGGAGGCGGCGGTGCGGGCAGCTCTGGCTCCAGCCCGAGCAGCGCCGCCTCGGCCTTTCTGGGAAACTACCCGTGGTACCACCAGGCTTCGGGCTCCGCTTCACACCTGCAGGCCACAGCGCCACTTCTGCATCCTTCGCAGACTCCGCAGGCGCACCATCACCACCATCACCACCACCACGCAGGCGGGGGCGCCCCGGTGAGCGCGGGGACGATTTTCTAACCTCGAGTGGACAGCGTCTGAGACTTGAGAACTGAGACACCGTGTTCTTCAGCACGCGTCCTGTAGCTAGAGGCTCGAACCTACCAGCCCGCGACCGCCACCCACCCAGCGGTATTGGAAGTGGCGACCAGGGGTGACCCGTCGTGGAGCCACTTCTCGCACTGCCACGGAGCAGCCGGAAACAAGGAGGCCTCGTGGGATCCTTTAGTGCCAAGCCTGGCGTCCCTGGCCTCAATTCCGACCTGAGCCCCGGCCACTTTTAGGCCATCCTCGGACTTGTCGCCCCTTCCCAGCCCCCTCAGCGTGATCCTCAGGGTCCTTGGTCTCTTCAGGCCCTGAGCGGGGTCAGGCACTGGGACGCCTTCCCCGCCCTCGAGGCTTCCCGGCTCTCAGAGGCTCCTTTTTTCTCTCCTGCTCCAGGCCTCAGCTCCAGTCCGCTTCGGTTATTGACCTCCTGGGTCCTACTCCACCCTATCACCTACCCCCGTGACCCCCGGGATCCCGCCGGTTTTTTCCCCTCCTGGGGGCTCATGGGGGAGAATTCCCAGCTCTCCCAACTCTTCCCGCCTCCCACTTTCCCCAGGAACACTCCCGTAGCTCCTTCATCCATTGCCAGTGGAGGGTTTTTATTTTTATTTTTTTAAAAGTTTAGGTGCCTTTGCGGATGACCTCATTTTGATGTTAAAAAAAAACTGATTTTTTTAATATGTGGACGCTGCAAAAAATGTGTTTAAATTATCTTTTTTAAGATGAATTAAGGACTATTAGCTCGAACTTCGATGCAGAGTTTGTAAATAAGGGTGTCTGTGCAGATTTCCCCACATTTATTTGTATAAAAATTTCTCATCTTTTCAGACTTTTTTGTAAACCGCCCCCGAGTTGTGAAAGCTGCGACGTAGCAGTGACCTCAGCAGTCCCTATGTTTTCCCCCTTTGAAAATTTTTCTCAGTTAAATTAAGCTACTGATTTGAATTTGTTTTTATCTTGTCCTAAAGTCTTTGTTCTTGAAATGCAAGGTATTTGGGGGTTATTTATTATGAAAGCAACATACTCTTAATGTTGATTTTACAATATGAAGAGATTATTTAAAATAAATTATTGTTTTCATTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023391-Dlx2:NM_010054:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.754
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=9.6)
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:
CCTTCAACGACGCTTCCAGAA
R:
GGGTAGTTTCCCAGAAAGGCC
Band lengths:
342-801
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: