MmuINT1008337 @ mm10
Intron Retention
Gene
ENSMUSG00000041966 | Dcaf17
Description
DDB1 and CUL4 associated factor 17 [Source:MGI Symbol;Acc:MGI:1923013]
Coordinates
chr2:71087315-71088502:+
Coord C1 exon
chr2:71087315-71087398
Coord A exon
chr2:71087399-71088346
Coord C2 exon
chr2:71088347-71088502
Length
948 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTC
5' ss Score
6.35
3' ss Seq
ACTTTCATCTGTTCCCCAAGACT
3' ss Score
5.16
Exon sequences
Seq C1 exon
AAGGAAAATTTAATCACCGTTACAGCTTCTGGACGTGTGGTGAAAAGAAATGTCAGCCTTCTGGATGATGACCCAGAACAAGAG
Seq A exon
GTATTCCTTAGCCCAAGATAACCAACAGTCCATTTCCATTCAGTTTAATGCTTCCCCTGCCCAGGGCAGGCACCCTGCAGGCAGGATGGGGAAGGGAGTGTGTGGTCCACTCAGTGTCACCCCCTTCTGGGGTCTCATTGCAGTTTTCACACAGTTTTATTTGTAGTAAAGTTTATGGGGCCAAAATAACTTGAACACATGATTAGCTTATTGTTTTTGTAAGTTATGCATTTTGTTTGTTTGGTTTGGTTTGGTTTGGTTGTTTTTCAAAACAGGGTTTCTCTATGGAGTCCTGGCTATCCTGGAACTCAATTTGTAGACCAGGCTGGCCTTGAACTCACAGAGATCCATCTGCCTCTGCTTCCCAAGTGCTGGATTAAAGGGGTGCACCACCATTGCATTTGAGAGCACATGCAAGCACACACATATACATATGTACTATTTTTAAAGATAAATTGTTTTTAAGAAGCACATTTTTCATGGTGAGTAATAAATATAGCTGAACGGTAGAGTGCCTGCATAGCATGCGTGGGCTCCTGGTTCCAATCCCTATAGAAGCAAAGAAAAACAGAACAAAGCTAAACAGAAAACGGGAGAGGTGGCTTGCCAGCTAAGGGCACTTGTTCTTTGAGTTTGAGGACAAGAGTTTGAGTCCCAGCACCCATGTAACAACAAACTGACGATAGGTGAAGGCCTGTAACGCCAACCCCAAGGGATCCAGTGTGCTTTCTAGTTGTTTGCCAAGTCCATGGGCTACTGCTTAACATGTGGAAATCTGGAGAATGACCCATGTTTTATGGGTATACATAGAGATACATTTCTACTGATTCTCTCACTTGTTCTTCCTTCTGTCGTGTTTTCAGAAGTGATAGAATAATTAAATTTAGAATGTAGAAATACTTCTTGCTTATTAGCTGGAGTTGACCCTACTTTCATCTGTTCCCCAAG
Seq C2 exon
ACTTTCAAAATCGTGGACTATGAAGATGAGTTGGACTTACTTTCCGTAGTAGCTGTCACTCAAATAGATGCTGAAGGAAAAGCTCACCTGGATTTCCACTGTAATGAATATGGAACCTTACTCAAAAGCATCCCACTAGTGGAGTCATGGGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041966:ENSMUST00000154704:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAAATTTAATCACCGTTACAGCT
R:
CACATCCCATGACTCCACTAGTG
Band lengths:
239-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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