MmuINT0006355 @ mm10
Intron Retention
Gene
ENSMUSG00000043419 | Chd3os
Description
chromodomain helicase DNA binding protein 3, opposite strand [Source:MGI Symbol;Acc:MGI:1915359]
Coordinates
chr11:69340461-69342641:+
Coord C1 exon
chr11:69340461-69341058
Coord A exon
chr11:69341059-69341158
Coord C2 exon
chr11:69341159-69342641
Length
100 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
ACCCTTCTTCTTTCCTCCAGTGC
3' ss Score
11.04
Exon sequences
Seq C1 exon
CCTGCCCTGGCCCAAGGAGGGCTCATTCGTTCTGTATCCTAGCCGCCTAGAGATCGAAGCCCTCGGGCCACGGTGACCACGATGCAGCTCTTGATGAGAGTGCCCTCTCTTCCCGAGCTGGGTGAGCTGGACTGCAACATCTGTTTCCGACCCTACAACCTCGGGGCCCGTGCGCCCCGCCGCCTGCCTGGCACGGCGCGCGCCCGCTGCGGCCACACGCTGTGCACAGCTTGCCTGCGCGAGCTGGCAGCGCGGGGCGACGGCAGCCGCACGGCCGCGCGCGTGGTGCGCCTGCGCCGCGCTGTCACGTGCCCGTTCTGCCGCGCGCCTTCCCCGCTCCCGCGCGGCGGCGTCACGGAGATCGCGCTAGACCCTGTCTTGTGGTCACGGCTGGAGGAAAAAGCCCGGGCTGAGCGTGAAGGAGACCCGATGGGGAGCCCGGCCAAAGACAGCGGAGAGGATGGAGAGGACGACGACGGGGAAGCGGAGAGCGAGAAGGGGGCGGGACCTCCAAGTGCGGGTTGGCGCGCGCTTCGCCGAATTTTGGACAGGGTCCTGGCGCCGGCACGCCGCTTGCGGCGTCCGTTGCCTAGCAATG
Seq A exon
GTGAGGGGCGGCCTAGGGAGGATACTGGGTACATTGCACCGAAGAATGCTGGGTCAAGTTGCATCCTCCTGTTGCCACTAACCCTTCTTCTTTCCTCCAG
Seq C2 exon
TGCTCTACTGTCCAGAGGTCAAGGACATTGCCCACATGACCCGTTGTACGCTGTAACCAAGGAACCCCAGAGCTATGGCAGAAAGCAGGTGGGAGCAGCATCCTCAGGCGTGCTCTGACACAAAAGGTTGATGTCAAGACTACCTGGAAATCAAGGCTGATGCTGGAATTGGTACATGCGTGATGGAGATGGAGCTCAACAGAAAGGACCCTAGATGGTGTGGATTCTGAGCGGCGAAGGCTCCTAGACTGTGCCAGCATTATATTTTCAGGATGGAGTGGCCAAGGGATAATAGAAACAAAGCCTACCATAATGTAGGAAGAAAAAAAAAATAACAAAGCTTTGGCGTTTGTTCAGAGTCTGTGGTGTAAGCAAAGGATCCAATTTTAGCAGTGGTCTGTGGTTGACAATGTGTACTGTGGAAAAAAGGACAGGACAGGGGATAAGCTAATTTATATGTCATGTCAATCTCACTTATCTGGTTGTGTTTGCTGGCATGCCATCTTCCCACTCTTGTTACCGTGCTCCAGCAATTACTGAGTTGACTCCCTGCTTATGATTGGGAATCTTGCATATACAACCTCCCTTCAGCTGGATAGGGCAGGTATGAAAACATCCAAGGGGCATTTATTTACATGAGGCCTTATTAAAGGCTTATCAAAGATGGGTGAGCCATTTGATAAAGGAAGCAAAATTTAGGCCTTTGTTATCTTTACTGACTCTGTAGCAATACTGGGGAAAAGAAAAAAAAAGATGCTCACATAATTTTAATTTGTGTCCCATAATGGGACATTGTTTACTGTATGTAGTTAGTTCTATTCTAAAGTCCTGTAAATATCTTACTGTAGACTTAAAATCAAGACCAGCAGTGTTGGTTGGTCTCACAGCTTGCTAGAAATGCAGAATTTCAGGACCCCAGTCCACATTCCCCGGTAGTTTTAGAATCCCAGGTATGTGTATGTAAGTTAAGAATCACTGGTTTAGCTCTTAGTCACTCTGAGATGGCATCATCAGCTGTAGGTGGAACATTTAAAACACTAGTGACGCATTAAAGTGCCAAAGTGACATTCTTTTGAGAAAAATTTTTCTGAGCTACAAATGTGAATTTACAAGGCCTCAGTTTTCAGAGGTCTTCAAGATTTTGTTTTTAATGACAAATAATGTATGTAGTTCTAGGGTATAAACCTCCATTTGTAAAATGTTTTGTCTTTTTCCTGTCCTTCGGTTCCAGCTGAAATCTCCCCTTTTGGAGGCCAGCATGCATCTGTGGGAATGTGTATGTTTTCTCTATACGTGTTGCCAAAGGGAATGCTATGTTTATTTTCTGCTATTTTATGTTTTGAGTATTTCTAGAGTATAAATTTCAAGTGACTATCTCCAGAGCCGATAGCAGTGTTAATGTTATATGTATTCAAAAAAAAATGTTTGCTGAATTTATTTTGAATGTAATAGTCTCTAGAATAAAGTATCTGGGCTCATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043419:ENSMUST00000129321:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.271 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF146341=zf-RING_5=WD(100=38.2),PF0216110=Prog_receptor=PU(88.5=71.1),PF154511=DUF4632=PU(78.9=32.4)
A:
NA
C2:
PF0216110=Prog_receptor=PD(10.8=78.9),PF154511=DUF4632=PD(19.7=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGACAGCGGAGAGGATGGA
R:
CCCACCTGCTTTCTGCCATAG
Band lengths:
247-347
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