MmuINT0005548 @ mm10
Intron Retention
Gene
ENSMUSG00000015488 | Cacfd1
Description
calcium channel flower domain containing 1 [Source:MGI Symbol;Acc:MGI:1924317]
Coordinates
chr2:27015484-27018480:+
Coord C1 exon
chr2:27015484-27015609
Coord A exon
chr2:27015610-27018372
Coord C2 exon
chr2:27018373-27018480
Length
2763 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
GGATGTCTGTTTTCTCCTAGGAT
3' ss Score
8.31
Exon sequences
Seq C1 exon
CATGAACGCCTTCATCCTGTTGTTGTGCGAGGCTCCCTTCTGCTGCCAGTTTGTGGAGTTTGCAAACACAGTAGCTGAGAAGGTTGACCGGCTGCGCTCCTGGCAGAAGGCTGTCTTCTACTGCGG
Seq A exon
GTGAGGGGCTGTTGGGCAGGGCCTATGGCATGGTTCCCAAACCCCTGCTGATTAAAACAATGTTGTGGGGTGGGTGGGCCAGGAACAGGTAGAAGCCTTTTCTTCTACAGAGCTTTTATTTGATAGCAGTGGGCACAGACACTGACTCATCCAATAACAGGTGCTAAAGAATGGGACCCAGTACCTGCCTCCCCGAGCTCAGATGGCAGCTATGGCCACACAAGTGTCCTACTAGTGGAAGGATGGGGAAGCAGCTGGATTACTTTCACTTGGGAGTTTCCAGGCAGGTTGTAGTGGATATGTGTACATCAGCATTTGCTAATGTATGTGTAGGCATGGTGAAGCCTTGCGAGGAGCGTGGCCAGATGTGAGACTGCCGAACAGAAACACCATTTCCCTCTAAATCCACACTTCTCTGGTTCTGGCAAGTGCAGCGTGTCGGACTGCAGCACTTCTGAGATAAATGTAATACCTGGGGGCCTCCGAGGAAGGGCTTTCCCATGAGAGCCTGGCTAGACAGCAGTACTCACTGTAATTACCAATATTGTCATTAAGATCAGGTTCCCCTCCCTCAGGATTGGTGGGACTCAGAGGCTTCTGCAGGGAGAGCACACAGTATGTGCGCCTGCTGACAGTCTTCTGCTGTGTCTAAAATCAGGGGATCATAGAGTTAGAAAATTCTAATCAGTGTAGCATGGTTGTATGTGTGTGCAAGTGTGTGTACACATGCACGTGTACATGCATGCGTACATACAGGTGGGTGTGCATGAGAGTGGAAAAGACTAATGTAGACATCAGGTATTTTCCTCAGTCATTTTCTACTTGCTTTTAGAGACAGGCTCTCTCACTGAGCCTGGAGCTCACATATCTGGCGAGACTGCCAAAGCCAGTGAGCTGTAGGAATCCACCTGTTTCCACCTCAGCAGCCCCAAAGCACCTGGGTTTGTATGGGGCTCCAAACAGGCTCTCGTGCATGTGCAGCAGGCACCAGCTAAGCCATCTCCTCACCCCTTCCTTGTCTTTGCCTTTCCCTCTGTATTTGAGATGGTCTTATTATGTAGACCTGGCTGGCCTTGAACTCACAGAGATTCATCTGTCTCTGCCTCCTCAGTGCTGGGATTAAAGATGTGCACCACCATACCTGGCTTTCTTTGGATTTTTAAGATGTGTTGTCATGATGCTGACAATAGTGTATGTTTACCAAAAGTCATTTGTAAAGTAAAAACGGTCATTCCGGTCCTCACTACCTGTTCATCTATTGGCATGCGTTCCTCCGGTCTAAGTGCAGACATGTCTGAAGCTCCTCTCTGACATGCTTATAACTATTACACATAAGTTTGTACCTGCTCTTTTTGACTTGCTGTGGTTTCAACATCTTCAGTATTGTCATAAAAATGATGCCATTCCTTTTATTGTTAAGCACATTTATTCAGCTGTACATACTTACTGGCTTTGTCTTAATTTGTTAGCTGGTGTCAGTCGAGTCTGGTGAACATCTGTCGGCCAAGCTAACCATGATGCCATCCTTAGGAGACGTTTCCAGGTGTGGAATTACCAGACTAGGTTATGATCGCTCAAAAGATCTTAACATACGCGACTCAGTTACTTCCCCAAGAGGCATTCTGGGTGTCTCTCTCCTCCCCATCCAGTGCCTGGTGCTACTTTCATATGTCTAAGAAGTAAAATACCCTCCTATGGGTTCAATTCATTTTCTTTTTCGAAGGGTTTCTAGCTTCTGGTCCACTCTCTTGAGAGCTTTAATGTGTGACTTTGCAGGCTGTGTGTTTTCAGTATTAAAGACCTCAGATTCCTTTGTTTCGTTTCCCATTCAGATTTTTCCAGCCTGTCATTTGCCTTTAATGCTAATGGTTTGCCTCGTGATTTCTATTATTTTATTATAGAGGATCCTCAACTTAGCTTCCATTTTGATAAAATAAATATCCTGTTGAAAACACGGTAGCACACCTCACCTACCAAACACGGCTGTCACTAAACTTCACCATGCTTAAAGCCCTGATGCTGGCCACAGGGGCCTGGCCTGGCATCTCATAAGGTGGCCGCAAAGCTCAATATCTGCCGAGTACCGCAGTCGCAACCATCCAAGTCAAGGACATGCTGCACTTTGAAGCACTTCTGGCTACACAGACATCTGCACCTGAAGTCCAAGGAGTGCAGTTGGCTCTGAGTATCATCCTCGTGCCCAGTGAGCCTCCTCCCCAGAAGTGACTGGACTAAGGGCTGAGCTGCAAGCTCCATCATCTTCCTGGGTCAGCGAATCCACAATTCACCTCATGTTGGAAACATACCATCCCTCAAGATTGAGCTGCAGAGGTTCTTAGGGCTGTATGAACCCACCACTAGGTGGCGCCAGGCTGCTACTGAAGCCCCATAGTTGCACTGGGTCCAGTGTTCCTGGGGTTGGAGCTGGGAGGACTTGCTGAGGAACAGCTGGCCCAGGGTTACTGAACTGATGAAAGCGTTCATACAGTGTTTGGGATGTGGGTGTAGGATAAATGGCCATCTGCCCTCACCTAGATGTCAGGACCTCATTATACGATGAAGTGGAGCCTTGACAAGCTCACTTGGTCACAGGGCTGTACAGCTGGACTGTACCCCAGACCCTCTAGGCCTAGTAGGGGTATTTACCCAGCTCTTTGCTGTTTAACCATGAGTGGGTCATAGATCTTGCCACAAAGATCTGATACAGCTTTGGACTCTGACCCCAGAAAGGATGCGATTTTAGGGATGTCTGTTTTCTCCTAG
Seq C2 exon
GATGGCCATCGTCCCCATCGTCATGAGCCTCACCCTGACTACACTGCTGGGCAATGCCATCGCCTTTGCCACGGGGGTGCTGTATGGACTGTCTGCCCTGGGCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015488:ENSMUST00000114006:3
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:
PF102334=Cg6151-P=PD(56.8=95.5)
A:
NA
C2:
PF102334=Cg6151-P=FE(45.0=100)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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