MmuINT0018961 @ mm9
Intron Retention
Gene
ENSMUSG00000026960 | Arl6ip6
Description
ADP-ribosylation factor-like 6 interacting protein 6 [Source:MGI Symbol;Acc:MGI:1929507]
Coordinates
chr2:53051118-53053371:+
Coord C1 exon
chr2:53051118-53051556
Coord A exon
chr2:53051557-53053317
Coord C2 exon
chr2:53053318-53053371
Length
1761 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
AAACCTCTTTGTATTTACAGAAT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GGACAGCCGACCTTCGCGGGACTCTCAGTCTTTCCCGCCATGTCGTTCGTGGAGAGTTGGAGGTTTGCGGGCGCGCGGAGGCGCCGTCAGGTTACCCCAGGCCCTGCGACTCGGCCCGGGTATTCCGACTACACTCAGGGGGACAGCTGGGGTGAGGGCGAAGGCGACGAAGACGAGGGATGCGACCAAGTGGCCCGCGACTTGCGGGCAGAGTTCTCAGCCAGGGCGTCGTCGGAGACCAAGAGGGCCCCGCTACTCCCCCGGGTCGGGGACGGGTCTCCGGTCCTGCCGGATAAGCGCAACGGCATCTTCCCGGCCACTGCGGCCAAGCGAACCCAGGCTCGGCGGTGGCCCATCCAAGCCCTTTCCATTCTCTGTTCGCTGCTGTTCGCCGTCCTCCTTGCTTTCCTTCTCGCCATCGCCTACATGATCGTTAAAG
Seq A exon
GTATTGAAGCCCAGGCCTTGAAAGGCTGTCCAGCGTAAAGTGCAGCCAGTACATCACACGCCCCCATTCACACTCTCCTCCCAAAGCGTTCCCTCGAGACTGCTATCGTCCCTTTTGTCTTCTCTCCCTAGATGGACGTCCTTGCTCCGTCATGAGACCCATTTAGAAAAGATCTTTGGCTAAATCTACAGTCTTTAATGCCGTAAAGGCATTGAACACTTTGAGTTGAAACAGCAGAGCCCCTTACTTTTAAAAGGATCAAAAAAGTACGTGTAAGAAAGTACTGCTGTACGTCCTAAGGCTGATGTTAAGAGACATGCTGGGTTTGCACTGTTCTCTGAACCTAGGACAAGGATCCCCACCCCCACCCCATCCCAAGTTTCTACTTTTCTCTCTCTCTCTCTCTTTCTTTCTTTTTTTCTTTTTTGAGACAGGGTTTCTCTGTATAGACCTGGCTGTCCTGGAACTCACTTTGTAGACCAAACTGGCTGGCTTTCTTTCTTTCTTTTTTTTTTTTAATATTCTTTTTTAAAAATTTTTATTAGATATTTTCTTCATTTACATTTTAAATGCTATCCTGAAAGCCCCCTATACTCCCCCCCCCCCCGCCCTCTCGCCCTGCCCCCCTACCCACCCACTCCCACTACTTGGCCCTGGCATTCCCCTGTACTGGGGTATATAAAGTTTACAAGACTAAGGGGCCTCTCTTGCCAATGATGGCCGACTAGGCCATCTTTTGATACATATGCAGCTAGAGTCAAGAACTCCGGGGTGCTGGTTAGTTCATATTGCTGTTCCACCTATAGGGTTGCAGTTCCCATTAGCTCCTTGGGTACTTTCTCTAGCTCCTCCATTGGGAGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTACTGTATTTGCCATGGCCTTGATTTCTGAGTTCAGAAACCCGCCTGCTTCTGCCTCCCAAGTGCTGGGATTAAAGACACATCACCACGGCTTGGCTAAGTTTCTACTTTTATAGGCAAAAATGGTTTTTCTATTTTTCCCTTGTAATCAGGTAGAGTTATTTCAGGACAAGCCTATTCTACTGTGTCAGAAATTGACATATTGTCCAAATAGCAATGCTCAGAAAGACCCTCTTCCCCCATTTGAATTTGTTGTATGATTTAGTATTTATTGTAGTAGAAAGAGATTTTAATTCAGTTAGTGCTGACTTTGCCAATTCTTGAGAAATAGAAACATGAAAACTATTTTGTATTAAAAGGATTCAACACTCATTCTTGTGTTGCCTTTACTAATTAAAATTAAATCTCCAGTTCAGTTTTGCTTTATTTCCTCCCATTCCCTAATGGGATGCAGGTGGCCCTTCAACAGTTTTTTTTCCCACTTCAGCCATGATAGATTTGTTATTCACGTAGTTTATTTTTCTTTTGTAACATAAAGGTATATACCCATGAGTAGACGTTCATTGCAGAGGACAGTGGCATTTTGGAGAATGGAGTGAGGAACTGAAGTCAAATTCTGTTATGCCCTGAAGTTTCTTTTGTACAAATTTTCTTCAACACATCCAGGAGATAAACACTAGTCTCGTGTTTATTGCACTTGACTCTTGTAGAGCTATTTGCATGAAGGTAGTAAATCAGAAATTTAACCTAGCTCTGACTTTAGGGTCCTTTTGACATTGAACAGTGTCTTCAAAATGCCTTTGGATATTCATGTCATGAAGGAACACTAACTACTCTTCTACCTAAACCTCTTTGTATTTACAG
Seq C2 exon
AATTGCATGCAGAAAACTTGAAAAATGAAGATGATATACATACTGGGCTGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026960-Arl6ip6:NM_022989:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.317 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150621=ARL6IP6=PU(18.2=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ATTCCGACTACACTCAGGGGG
R:
TCATTTTTCAAGTTTTCTGCATGCA
Band lengths:
346-2107
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: