MmuINT0009060 @ mm10
Intron Retention
Gene
ENSMUSG00000026596 | Abl2
Description
v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene) [Source:MGI Symbol;Acc:MGI:87860]
Coordinates
chr1:156620839-156622655:+
Coord C1 exon
chr1:156620839-156620901
Coord A exon
chr1:156620902-156622484
Coord C2 exon
chr1:156622485-156622655
Length
1583 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTCTCATTTGTGTCTTTCAGAAG
3' ss Score
9.91
Exon sequences
Seq C1 exon
ATCACTTTGCCAGCTGTGTGGAGGATGGATTTGAGGGAGACAAGACTGGAGGCAGTAGTCCAG
Seq A exon
GTGAGATCTGTGGGCATTGAACAAAGCATTGAAGGAGAGATGGAGAAGAGGGAATGACTTGAAACACAAGGAAATCGCAGATGCCAAGCTCTTTTCCCTTCAAATGTGGCAAAATCAATTTTGAATAAACTAGGAAGGAGACATAAGAGAAAATGTTATATGACACAGACAGATGGATTGTTTGCCTCGGCAAGCAGCCATTTAACACAGCCCCTTGAAGCAAGAACATTGCTCCTGAGAGAACAGTGGCTCTTTTTGGTTTTGGTTTTGGTTGGTTTGTTTGTTTTGCATAACCAAACTAGGGTATGAGAATCGGGTAATTTTTAACAAATGTATAAGATTAGATTCAGAAACTTCAAAAGCCTTAAGAAAGAAACAGATCTTACAAGGTCTTAGCTGGTGTGCATATTCAAACTCAGAAGTACATGGATGGTATTTAGAACTTTGATTAAGTCACTAATAGTTTACAAAAATCCCCTGCTCAGGAAAAGAGATCAGAGTTTTTTTAAAAATTAAAGAAATGAAGAAATGTAAGCTATCATAATATAAAGCCGTATTTTGGATGCTAACAGTACTGTAATAAATTAGAATGTATTTCTTTTTCTTTCTTTACTGTTTTTGACATAAGGTAAGTCTCACTCTGTAATCTAGGCTGGCCTCAACCTCCTGGCCTCAGTCCCCTGAGTGGTGCATTACAGGTGCGAGCGGCCATGCCTGATTCAGATGTGTTTCTGTTTAGGCAGAGAGCGTCAGGATTAATCTTGCTCCAAGCACTGTGTCTGTATTTGTTATTTGTATATACATGATATTGATATGTAAGACATTTATTTCTTGAGAAACTTACTTTCCCTGCTTTGTTTTGTATGAAGGCATAAAGCAAGCACCTAGCTTAGAAGGGTTTCTTAACTTTACCATCCATATTTCAGCTCATTACCACATTAGCCAGGGGTGAAGGACACTCCCTCCTGTCAAGCCAGCACTGCCTAGATGGCAGAAGGATGAGGAGGGAAGGCCACCCTCAGGTCATAGCAAGCTTGAGACTGAGGCCAGTATGAGCCATTTGAGACTCAACTCACCCCACCTCCACAGAGCTGCAGGTCATTACACAACAGTGTATCACATGTGCTTTATAAAGCTAGCTTACTGTTTGTAAGTTTTCTTTCTCATTTTTAGAGAGCTGCATCTTTGTTGTTCATTTAGGTCTGATTTAGGTGAATGCATATAAACCAGAACTAACTTCTCTGGTTATGGTCTTTCCTTTGACTACAGTATTACAGTTTCAACAAGTCAGTTGCTGCCCTAAGCCCAGGAAATAATAGCACCTATGCCAACTCTTTGTGTGTGTGTTGTTTTTTGGGATAGAGTTGTATGTAGCTCAGCCTTGCCTTGAATTCACTGTACAGTCCGTAGAGGAATTCACTGTACAGTCCGTAGAGGATGACCTAACTAACTCTTGGCTTAGTCTTTGTAACGTTCTGAGCCTAAGTGTATACCAACAGTTCACATGCAGCCCTCACTCAGAGCTCTGAATTCTTGGCTGTTTGACTCACTCACTGGATACCTTTCTCATTTGTGTCTTTCAG
Seq C2 exon
AAGTTTTGCACCGCCCGTTTGGCTGTGATGCTGAATCTCAGGCACTGAATGAAGCGATCAGGTGGAGCTCCAAGGAGAACTTGCTGGGAGCCACTGAGAGTGACCCTAATCTCTTTGTTGCACTTTATGACTTTGTGGCAAGTGGTGATAACACACTCAGTATCACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026596:ENSMUST00000166172:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.108
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001823=SH3_1=PU(38.3=31.0)
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:
ATCACTTTGCCAGCTGTGTGG
R:
AGTGATACTGAGTGTGTTATCACCAC
Band lengths:
230-1813
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