MmuINT0050116 @ mm10
Intron Retention
Gene
ENSMUSG00000029754 | Dlx6
Description
distal-less homeobox 6 [Source:MGI Symbol;Acc:MGI:101927]
Coordinates
chr6:6863334-6865271:+
Coord C1 exon
chr6:6863334-6863827
Coord A exon
chr6:6863828-6865077
Coord C2 exon
chr6:6865078-6865271
Length
1250 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCTGTGTCATTTGCTTACAGATC
3' ss Score
9.8
Exon sequences
Seq C1 exon
GTGAAAGAAACCCGGGAGAAGGCTTTCTCCAGCCCCCAAAGTTTTGATGATGACCATGACTACGATGGCTGACGGCTTGGAAGGCCAGGACTCGTCCAAATCCGCCTTCATGGAGTTCGGGCAGCAGCAACAGCAGCAGCAGCAACAACAGCAGCAGCAACAGCAGCAGCAGCAGCAGCAACAGCAGCCGCCGCCGCCGCCACCGCCGCCGCCGCCGCAGCCGCACTCGCAGCAGACCTCCCCGGCCATGGCAGGCGCACATTACCCTCTGCACTGCTTGCACTCGGCCGCGGCGGCGGCGGCGGCGGCCGGCTCCCACCATCACCACCACCAGCACCACCACCACGGCTCGCCCTACGCGTCGAGCGGAGGCAACTCCTACAACCACCGATCGCTCGCCGCCTACCCCTACATGAGCCACTCGCAGCACAGCCCTTACCTCCAGTCCTACCACAACAGCAGCGCGGCCGCCCAGACGCGCGGGGACGACACAG
Seq A exon
GTGAGAGGCCGCTTAGGCAGCTAGCTTCGCCCGCCTCCCCACTGCCTCCGACCCCTCCCGCCCCGCTCACTTCCTCCACGCCGGGGCCTCCGCCGGCCCCCTCCTGCGGGCGGCCCCGTGCGCCCCCAGTCGGGCCCCGTGGGCTCCCGATCGCCTGGCGCCTGCCTGCCGGCCTCTCCCTGCCCGGCCCCTTCCCGCCGCCGTGGACCCCCGGCTGGCTCACCCCGAGGCCCGCTGGCTCCTCCGCCTCCTGCTTGTGGTTCCCATTGAGCCTCCAGGCTGTGCCCTAGCCTGGCTCTACGGTCCCCACTGCGCCCTCCAGCCCACCAGGTCTGTGTGCCCTCTACCTTGTCCCTTCCCTCTCTGCTGGGACCCGCATTTATCAGAACTGGAGACAATTCTGGGCCAGGACTGAAGGGCTAGTTAAGGCTTCCCATCTCAACGCTGGGAGAGCGGTGGCCTACTTTGCCTGGGGCACTTGGTGCCCCTTGGTGACTTGGAACGAAGCTGTTGCAGCCGATAGATACTAGTGACATTGGGTTTTGTCTTTTGTTTTTGTTTTGCTTTTAAAATCTTCCCTCGTGGGCTTTGAGGTGTCCCCCCCACGTCCCCAGACCTGGCTCCCTCTCTCTGGGTTTTCAGTAGTACTTTGGCTGCTCCTTTGTTCTTGGAAGTGAAGCAGAGGGCCTGGGGTTGATAGCTCTCCGTTGTCCAGAGAGTCTCAGCCTGCTCTGGAGCTGCTCTGAGCTCCTGGTTGTGTTCTGTGTCTGGGCTTTGATACACGCGAGCAGAATCATTTCAAACATACAGAAGGGACTTAAAGCACTAAGCTTGCAGCTGGGTGACACAAAACTAACTGGTCACATAAACAACCGGGTGGTTCTGGTATAGCTTTAGGCGTTGGGAAAAGCCAGGCCAAGAAACCGCTCTCGGGCCCAGAGAAGAGAAGCCTTACAGCGCCACGGACTTCGGAAAGCGGCCTGCGCTGTCTCCGCTGTTGCGGAGCGTCTCTTTTATGCCCCGGGCTTCCTAGATTCGATCCACTATCATAATGCATTGTTAGTGTTGGAGACACGGTCGGAGGGAAGCTTTCACAGCCTCTGGGGGCACGTGCCCACAGTGGTATAGCGGGGATATTACGAGGAACTCTTTTTAAACTTGGGAGAAACTCCTTGCCAGCCTTGTCACATGAAGGGAGAAGGCAGTAGTGGCCTCGCGGGTGACCACTCCTCTGTGTCATTTGCTTACAG
Seq C2 exon
ATCAACAAAAAACGACAGTGATCGAAAACGGGGAAATCAGGTTCAACGGAAAGGGGAAAAAGATTCGGAAGCCTCGGACCATTTATTCCAGCCTGCAGCTCCAGGCTTTAAACCATCGCTTTCAGCAGACTCAATACCTGGCCCTTCCCGAGAGAGCCGAACTGGCTGCTTCCTTAGGACTGACACAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029754:ENSMUST00000160937:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.993 A=NA C2=0.374
Domain overlap (PFAM):
C1:
PF053086=Mito_fiss_reg=WD(100=68.0)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=64.6)
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:
CACATTACCCTCTGCACTGCT
R:
AGCGATGGTTTAAAGCCTGGA
Band lengths:
357-1607
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