MmuINT0050115 @ mm9
Intron Retention
Gene
ENSMUSG00000029755 | Dlx5
Description
distal-less homeobox 5 [Source:MGI Symbol;Acc:MGI:101926]
Coordinates
chr6:6827805-6829628:-
Coord C1 exon
chr6:6829526-6829628
Coord A exon
chr6:6828489-6829525
Coord C2 exon
chr6:6827805-6828488
Length
1037 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGCCTTTGTTCCCCACCCAGGTG
3' ss Score
9.7
Exon sequences
Seq C1 exon
CTTTCAGCTGGCCGCTTTACAGAGAAGGTTTCAGAAGACTCAGTACCTCGCCCTGCCAGAACGCGCGGAGTTGGCCGCCTCTCTAGGACTGACGCAAACACAG
Seq A exon
GTAAATCCGGCCGCCGCCAAGTACCGGCCCCGCCTCGCCTGCAAGCCCAGCTCGGCTGCAAGGTTCGGTCCCGACTGGCTGGAGCCGATTCTCTAGCACTTTGCAGAAATTCACAGATAGAAAGACACCAACCGATGCATCTTTCCCTCCATGAGCCAGGCCCACGTGGCGGTGGGCGCGGGATTCGTCGTTTGTCCCGAGTTGCCGCCATCCCCTCCCACCCAAACCCACCCCTGCTTTAACCACCAAAGGCTGGGGACCAAGGTTCCATAGTGAAAACAAGAGAAGGGGTATTTCTGGGAGGAGGGGGAATCTGCCTCGCGCTCTTGAAAAAGGTCTGGGTCCCTTCACAGTGAGAAGCTTGCCTTACTATTGGCCTGATGATGAGTCTCCAGCCATGCAAAGGCCTGGATCGTCCTGTCCCGGTCGACCCTATCCCTGAGGCAGATCAAGCCTCAGCAGCCTGAAGGTCGCGAGGTGGGGGGCGCTGTTGTACGGGGAAACCCTCCGGGATTGTCCCCTTCTTTTCCCTCCCAACCCCGCCCGCTGGGGCCTAGAATAAGGAATGTTCAAGTCGCAGCCCAGAGCTTCAGGCAGAGTCTGGCCTCCCAGTGCCGAGGGGACTGAAGGGAGTTGGACAGGAGATTGGACAATCTCTCCTTTCCCTTGGCACAGTGCACCTACAGTTTGGCCCAAGCCCCTCCCCATCGGGGACTCTGGCCTTCGAGCAGGAGAGGTATCCTCCCCAGTGACCTGGTGCACAGGCCCACACGTGCGACCAGGTCTAGAGTGAATAAAAGACAAAGCCTTGGGGTAGCAGAAGCTGGTTCCCGCTGAGCTGGACAGAGCTCCCTCTGTGCGTCCCTCCCATTGCCTAGGCTGAAACTGCAACCTCCTGGCGATGGGCGGCTTGCTGCTGGTAGTTAGTTATCAGGGCAGGATAGTCTAGGGCCAGGAGAGCCTTCATTCGTCGCTCAGGGAAAGGCGCGTGCAACCTCTGAGTGTCCCGGTAACGTGTGCCTTTGTTCCCCACCCAG
Seq C2 exon
GTGAAAATCTGGTTTCAGAACAAAAGATCCAAGATCAAGAAGATCATGAAAAACGGGGAGATGCCCCCGGAGCACAGTCCCAGCTCCAGCGACCCTATGGCGTGTAACTCGCCACAGTCACCAGCGGTGTGGGAGCCCCAGGGCTCATCCCGCTCTCTCAGCCACCACCCTCATGCCCACCCTCCGACCTCCAACCAGTCCCCCGCGTCCAGCTACCTGGAGAACTCGGCTTCCTGGTACCCAAGCGCAGCCAGCTCAATCAATTCCCACCTGCCACCGCCGGGCTCCTTGCAGCACCCGCTGGCACTGGCCTCCGGGACGCTTTATTAGATGGGCTACTTTCTCTTGCTCAGTTTTGGGACTACAGTGTTGTGCTGGTTTAGAAATCAGAAAGAAAGGAATTCATACGGGGATGTTTGAACAATGGAAACAAAAAAGATTCATGTGTAAACTTTTTTTTTGCATGTAAGTTATTGCATTTCAGAGAGCCCCGCCCCCTTTTTTACGAAAAGAACCCTTTTTTTTTTTTTTTTTGCGCAACTGTGGACACTATCAATGGTGCCTTGAAATCTATGACCTCAACTTTTCAAAAGACTTTTTTCAATGTTATTTTAACCGTGTAAATAAGTGTAGATAGAGGAATTAAACTGTATATTCTGGATAAATAAAATTATTTCGACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029755-Dlx5:NM_198854:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.734
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=11.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACTCAGTACCTCGCCCT
R:
GGTGGCAGGTGGGAATTGATT
Band lengths:
348-1385
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: