MmuINT0050110 @ mm9
Intron Retention
Gene
ENSMUSG00000001510 | Dlx3
Description
distal-less homeobox 3 [Source:MGI Symbol;Acc:MGI:94903]
Coordinates
chr11:94981431-94983212:+
Coord C1 exon
chr11:94981431-94981960
Coord A exon
chr11:94981961-94983021
Coord C2 exon
chr11:94983022-94983212
Length
1061 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGGTGTTTTTCCCCTACAGTGT
3' ss Score
10.17
Exon sequences
Seq C1 exon
AGCATTTGACTGTGGCTTGGGACGCGGAGAGAGGCACGCAGCGACTGACCGACAGCCGGCGATGGTCTAAGCGCCCCTCGGCCACCCCCTCCCCCAGACGCGACCGCGTCCTGCCCTCGCCCTCTGGACACACACCCCCACCTGGGCTCCTCCGCCCGTTCGGCGCTCCTCGGAGGAGGCCCGGGGTGTTGCGGCGCTCGCCAGCATGAGCGGCTCCTTCGATCGCAAGCTCAGCAGCATCCTCACCGACATCTCCAGCTCGCTCAGCTGCCATGCGGGCTCCAAGGACTCGCCCACCCTGCCCGAATCTACAGTCACTGACCTGGGCTATTACAGCGCTCCTCAGCATGACTACTACTCGGGCCAGCCCTACGGCCAGACGGTGAACCCCTACACCTACCACCACCAGTTCAATCTCAATGGGCTCGCAGGCACCGGCGCTTACTCGCCCAAGTCGGAATATACCTACGGGGGATCCTATAGGCAGTACGGAGCGTACCGGGAGCAGCCTTTGCCTGCCCAGGACCCAG
Seq A exon
GTGAGGATGCCCGGGTTGTGGAGAGGGTGCGAGGGACTCTAAGGTTCCCAAGCAAGAGGAAGTCTGGGAATAGGAGCTGAAATCTAGGGAAACTCGAGGTTAAGAAATGGAAGCGTTGGAGATTAGAGGAGACCGGGTTAGATGACCTCCAGAGGGGTGAACGACACTCCGAAGAGGCGCGCACTGTGCGCCGCGGTCTCTTGGAGATTCCAGGGCAGCTGGAGCCACCGGGAGCTCCTTCTGAGTGATCATGGGGGCCTTCAATGCTGCCATCCCGCTGGCACTTGAGCCGGAGACGAAAGACGGTCGCCGAGAGCTGGAGGGGAGTCAGCGAGGACTGGAGGTTCCAGGGCCCTTCTTTTGGATGCCGTCAGGGGAAACCCGGAGTAGTGAAAGGCTTGTGGAGAAAGACCCAAAGAAGTCCCAGAAATGGAGGAGAGACTGGGAAGTAGAGATGCGGAGAGAGAAGTGGGGACGGCGAGAAAGAAATGTGGGGGGGGCGGTAAGATAAAGCGCACAGCAGAAAGCAACAGAGGAAATGAAGAAAGGGCGGGGAGGAAAGAAAGAAAAAGGAGGAAAGAAGAGGGAAGGAAGAAAAAGAAAACAGAGAGAAAGGGAAAAGAGACAGAGAAAACGCTTGTACTGTCCTTGCAAATTTTTTCCTGAAACAAATGATCCTGAACTAGAAAGCGTATTAAAAGGAGATGGGGAGGAGGGGGGACAAGAAGTGGGAGACGCCACCGCGGCTAGGTGGGTCACCAGAGAAGAGTGGCTGAGCCGGGAAGGCGTCGTGAGCGAGCCGCGCGGTCCTCGCCCAGTCGGTTGCTGGCGCCGGAGTCGGCGCTCCGAGGCCCCGGGTGCCGAGCTGGGAGCGCCGCGTCGTGGGCGGCCGCCGGTCCGGCTGGGTCGCTGCGGTTCCTCCCCGGGCGCGGGCGGCACTACGCTCCTCCAAGAAGTCCCGGGGAGATCAGTGGGCCGGAGGGTGCGGCGTCCGACGGTGGGAAATCTTGGAGAACGCGGTGGTCGCAGGCTGAGACTAAACTGGTGTTTTTCCCCTACAG
Seq C2 exon
TGTCGGTGAAAGAGGAGCCGGAAGCCGAGGTTCGCATGGTGAACGGCAAGCCCAAAAAGGTCCGAAAGCCGCGAACGATCTACTCCAGCTATCAGCTGGCTGCCCTGCAGCGCCGTTTCCAGAAAGCCCAGTATCTGGCCTTGCCTGAGCGCGCCGAGCTAGCTGCACAGCTGGGCCTCACACAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001510-Dlx3:NM_010055:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF124133=DLL_N=WD(100=74.3)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=65.6)
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:
CAGCATCCTCACCGACATCTC
R:
CTTTTTGGGCTTGCCGTTCAC
Band lengths:
355-1416
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: