MmuINT0009067 @ mm9
Intron Retention
Gene
ENSMUSG00000026596 | Abl2
Description
v-abl Abelson murine leukemia viral oncogene homolog 2 (arg, Abelson-related gene) [Source:MGI Symbol;Acc:MGI:87860]
Coordinates
chr1:158565196-158567038:+
Coord C1 exon
chr1:158565196-158565348
Coord A exon
chr1:158565349-158566948
Coord C2 exon
chr1:158566949-158567038
Length
1600 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TAAACTCTCTTCTGCTGCAGGCT
3' ss Score
8.52
Exon sequences
Seq C1 exon
CGTTTGGAGTACTGTTGTGGGAAATTGCTACATATGGAATGTCACCATATCCAGGTATTGACCTATCTCAAGTCTATGACCTACTGGAAAAAGGATATCGAATGGAACAGCCTGAGGGATGCCCCCCTAAAGTGTATGAACTTATGAGAGCAT
Seq A exon
GTAAGTGTTTTGCATGTTTGAGCTTTCAAAATGGACCAGCAACAGGATGGTTAATGAAATGGGCACCATTTCTGCTCTCAGCTTTGTCTGACGGATCTAGTGTTGTTAACAGTTGCACAGCTTGTCATTGACAGGCCAGTTGGCATAGTGCATGATATACCATTGAGTCTTATTGGAATCCTCAGGATAGTTGTCTGTAGCCCAAATATACTGCCAGTTTCTCAAAAACATTTGTGTATTCAGTAAGACAATAAAAAGTTGAGTTTGCATAATATGTTTGAAGGATGGCTGCTTTCAGCTAGATATGAATGGTTACTAAAGACTGATTATTAAGTAGCCTCTACTGGCCTGGAAGACCTGCCTGAGTTCAAATCCCTAGTAACCACATGAGATGCCTGTCTCAGCTGCACACGCCTGTAAACCAACCCCCCCCCCCCCCCCCCAATCAGGATCTCAAGAGATCCCAGGAACTCACTGGCCGGCCAGCACACTTAGCTCGTGGCCAGCTTCTGGTTCCGAGGAGACCCTAGATCAAGGCAATAAAGCGTGGAACAGAAGAGAAAGATGTCCTGTCTTTTCCTCAGGCTTCTACATGCCTTACATGTGGGCATCTTCCATCTCTTTACTACACAAATAAAAAACACAAACAGTCATCTCTTATGGATATGAACAGCACCATCAGGCTGCTTAGAGACACACATGAGGGAGGGAAGTGGAAGTGTGCTTGTGTTCATGCGGCGCTGGGTCATTACTATTTTCTACTGTAGTCATTTGTTTCTCATGCTACTCACGTTGCATACACACATACACAATGCAGTATTAGTGGGGTGGAAATCAAGAGAAAATTTGATAAGTAACTTCCCTTATTCCACCATGCGAAACCCACTTGGGTTTTCAGGCATGGTGGTAAGCACTTCTGCCCACTGGCCCAGCTTGCCAGCCCCGTCATAGTTCTCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCACCCTCGCCCTCTCCCTCTCCCTCTCCCTCGCCCTCGCCCTCGCCCTCGCCCCCTCCCCTCCCCTCCCCTCTTCTCTCCTCTCCACTCCACTCCACTCCTCTCCACTCCACTCTCTTTTTCTTTCGAGACAGGGTTTCTCTTTGTAGCCCTGGCTGTCCTGGAACTCATGCTGTAGACCAGGATGGATTCAGAGATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGCCGTGCACCACCTCCACTCTGTGGTTAGTTCACTTCTAATAGAGGAAAAACTTGCTATTTTCTAAATTTTCTTTTGGTCCTGTCTTCATTTTTGTAGCAGTAGGAATAGGAACCAAGGATAGATTGGTCTAGCACTATGAGGGCGCTCACAGCTCCCAAGGCTGGAGCTGAGAGATAGCCACTCATCTCATAGTTCCTGTACATGCTGTAACTCTGCTAGGCACACACCATGGTATGTGTGCCCGTTGCTTGGTGTGCCACTGGGGATGAGTCTCTCAAAGAGTCTGTAAACTCTCTTCTGCTGCAG
Seq C2 exon
GCTGGAAGTGGAGCCCTGCTGACAGGCCCTCTTTTGCTGAAACCCATCAAGCTTTTGAAACAATGTTCCATGACTCCAGCATCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026596-Abl2:NM_009595:9
Average complexity
IR-S
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:
PF0771412=Pkinase_Tyr=FE(20.2=100)
A:
NA
C2:
PF0771412=Pkinase_Tyr=PD(7.1=58.1)
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:
CGTTTGGAGTACTGTTGTGGGA
R:
TCAGAGATGCTGGAGTCATGGA
Band lengths:
241-1841
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: