MmuINT0018934 @ mm10
Intron Retention
Gene
ENSMUSG00000017418 | Arl5b
Description
ADP-ribosylation factor-like 5B [Source:MGI Symbol;Acc:MGI:1923119]
Coordinates
chr2:15068139-15069967:+
Coord C1 exon
chr2:15068139-15068199
Coord A exon
chr2:15068200-15069819
Coord C2 exon
chr2:15069820-15069967
Length
1620 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
TCAATGATGTCTTTCAACAGCTT
3' ss Score
7.66
Exon sequences
Seq C1 exon
AGCACAAAGTAATCATTGTGGGACTGGATAACGCGGGGAAAACCACCATTCTGTATCAGTT
Seq A exon
GTAAGTATCTGGGCCTGCTTACTGGCTCTTGAAAACTTGGCTTTTATAAGTTATAAGATGCCACACTTCCCAATTTTAATAATGCGGTGGTTAGACTTAAACATGCAGCTTTTTCTATATTTCCAAATAAAAAGGTAAAAGAAGATGCCCTTTACCCACTGAAGTCTCCACCATGCCCTAGCCTTCTGACTGTGAAAGGAAGAATGACTTTAATATTAAACTAAAACAAAGTCAGATGCTCCTGGGTGAGGTGATGAAATGCCTCTCACTTACCCCTTCCCACAGGAGCCCTGCGGAAGCAGACGTGGGCGTGGCTCTGGAAGCAGCTCGCCCCTAACAGCTTTGGCGTTGTTTAACAGAGCCAGACCTGTCTAAAGTGGTGGTGGTCAAAATGCTACTTGAGTAGCTTTTAAAACTGAAAAGTTTGAAATCCTTAGAGATACATTAATGCTCATCTGCAGTAAATGTTACCACCCCAGGAATCCAGGGTGGAAGAATTGCCCTTTATCCTCTCAGAGCCAAAGCAATGTTAAGCTGTGGGCATGGGTTTATTTCTACCCAGAGCACTTTAACAAATACTCACATGGTACTTGGCACCATCATATGAAACTTACCTCTCTCTTCCGGATCTTACATTTAAGCCTATCAGTGTGGGCCTGGGTTATAGCTCAGCAGAGCAATCCTCCATTTTGCAGGAGTCTCTGGGCTCAATTCCTAACACTACAAAAGAGGGGCGGAGGGAGGTGATATTGTCACATTTCAGTGTGCCAGGGATTCACGCTTTCCCATGGGGCCTAACTGAATCATTTTTAGTTACATTGCAAACAGGCTCCTCCTTATGTGCTATTGTTTTAGAGTTGAATCATTTATTTTCATTCATTAGCTAAAATACAATTTAATGTTATTTAGTGTTTAATATAAAGCTTAAATATCTCTGATAACAGTCTTGTACATAGTGTCAAATACAAAATATAAAACTCAAGAGAAAATTATAATTGTCTTCAAATACATGTTATCATGGAATGTTATCAGCAAATGTGTATGTTGAATAAGGTAATATAACTTAAGCAATTAAGATAATACAAGTGATATGGGAATCAGTATTCTAAATACAGTTCATTTTAAATCAAATTTCTATTTGCCTGTGGCCTTTAAGATGGTAGGTTAGTGTGCCTAAATTAGTTTTTATGGCTCAACGCTCATCTTGCTTACATGGACCTTCATCAAGATGGTAACAGGATATTGCTTGATTATTGCTAGTCTGCAAGTATTGTGGTCACAATTTTCCAGAAATTGGTCTTCCAGGGTAGAGCATGGGTCTCAATAGATTGGTATAATAACTGGTCATATTGGCATTTTGCCCACGGGCGTGTAAACCCACATCACGGTGTTCCCATCTCTGTGTGTCAGACTTGCAGTTCGTCCCATTATAAAACACAAAACAGTCTTCAGGGATTGCACTGTTTACATCTTTAAGTCTCCAAGCTTCTCTTTCTCTTGTTAATTGCTATTGTGATTGGTACAAATGAGGAAGGTTGACTTCTCGTAAAAACATAGCGATAAAGTATTCTTGGGGTTCTTAAGATTTACAAAAGAGTTTTCAATGATGTCTTTCAACAG
Seq C2 exon
CTTAATGAATGAAGTAGTTCATACTTCTCCAACCATAGGAAGCAATGTTGAAGAAATCGTTGTGAAGAACACTCATTTCCTTATGTGGGATATCGGTGGTCAAGAATCTCTGAGGTCATCCTGGAACACCTATTACTCAAACACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017418:ENSMUST00000069870:2
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:
PF0002516=Arf=FE(11.4=100),PF128032=G-7-MTase=FE(32.8=100)
A:
NA
C2:
PF0002516=Arf=FE(27.8=100),PF128032=G-7-MTase=PD(45.9=56.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACAAAGTAATCATTGTGGGACT
R:
TGTGTTTGAGTAATAGGTGTTCCAGG
Band lengths:
206-1826
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