MmuINT0019429 @ mm10
Intron Retention
Gene
ENSMUSG00000000325 | Arvcf
Description
armadillo repeat gene deleted in velo-cardio-facial syndrome [Source:MGI Symbol;Acc:MGI:109620]
Coordinates
chr16:18399656-18400253:+
Coord C1 exon
chr16:18399656-18399773
Coord A exon
chr16:18399774-18400084
Coord C2 exon
chr16:18400085-18400253
Length
311 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
AGGACACCTCTTCCCCACAGTCA
3' ss Score
6.43
Exon sequences
Seq C1 exon
GAATGTGAGCTCAGATGGTGCAGAGGCCCGGCGGCGACTCCGTGAGTGCGAAGGGCTGGTGGACGCTCTCCTACATGCCCTGCAGTCAGCTGTGGGCAGGAAAGACACAGATAATAAG
Seq A exon
GTGGGTGGGGCAGATGGGGAGCAGCCTGCCCTCCAGATTCTCAGCCCGAGGGTCACAGGAACAGAGGCCAAGGGTCACAGGGAGTACCCCAGAATGGCACAGATGAGAACAGGTTGTAACTATCCAGAACAAGACACACAGTCCCTCACATGGCACAGGGACATGACACAGGGTCGCTCTGGCAGTTCTCCCCATCTTAGGCTGACAGTGCCACTGTTGTTAACTAGCCACGGCTTCACACAAGGGTCTGGACGCTCAGCAGCCCCCTTGTCCAGTGTTTTCTGCTCAACCAGGACACCTCTTCCCCACAG
Seq C2 exon
TCAGTAGAGAACTGTGTGTGCATCATGCGGAACCTGTCCTACCACGTGCACAAAGAAGTTCCAGGGGCTGACAGGTACCAGGAGGCAGAGCCTGGGATCCCGGGCAGCACAACCTCCCAGCGACGGAGGAAGGATGACGCCAGCTGCTTTGGTGGCAAGAAAGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000325:ENSMUST00000115613:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.539
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGTGAGCTCAGATGGTGCA
R:
TTTTGCTTTCTTGCCACCAAAGC
Band lengths:
286-597
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