MmuINT0007549 @ mm9
Intron Retention
Gene
ENSMUSG00000015243 | Abca1
Description
ATP-binding cassette, sub-family A (ABC1), member 1 [Source:MGI Symbol;Acc:MGI:99607]
Coordinates
chr4:53048209-53049226:-
Coord C1 exon
chr4:53049134-53049226
Coord A exon
chr4:53048453-53049133
Coord C2 exon
chr4:53048209-53048452
Length
681 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
GTTTGGGTTTTTGCTTTCAGGTT
3' ss Score
9.93
Exon sequences
Seq C1 exon
TATGGAAGAATGTGAAGCTCTTTGTACAAGGATGGCCATAATGGTCAATGGAAGGTTCAGGTGCCTTGGCAGTGTCCAACATCTGAAAAACAG
Seq A exon
GTAACGGGGACCATTTCTTTGGGATAGCACATACTGAAGTCATTGGGGTTTTTGTTTTGTTTTGTGTTTTTATGTATTTATGTATGTATTTATTTATTTATTTGATGTGTGTTTGCATGATAGCTTAAAATAAAAACAGAAGAGTATAGGAAAAAGAACACAGGCTCTAAAGCCTAAATGGGCAGTATTCCATTTGCCTTTGCCCTGTACTGGCTGGCTGTGCGATTTGTAGGCAGGTTACTCAGCATCTCTGGGAGTCAGTTTCTGAGACTATTCCGAATTTAGTTATATAAGTGAAACTTAATAATTCACTTGTGATGTTATGATAACAAGGACACACTGTGGAGGTAACACAAAGAGGTTTATATCCTTACCCTGCCGTAACTGGGCGTTAACTCAAGGACATGGACAGGTGACTAAATTCCTTGGGCTTCTGTTTGTCTCTATGTCAGACTTCCTAGGTCCACATTGAGGTTTTAATGGAATCTCGTATTCAAGGCTGTGAGCTAGGTACCATACACAGCTAGGTATTCGGTAGATAAAACTGGTTCTTTCTCAGAAACTGCTCCGTGGGTCTGATGTTTTTCTTGGTACAAGTTGGGGTTTTCAGAATTGAGTATCCTCTTGAGTAGTTTGCTACGAATGCCCCATTTGTGTGTGTGTTTGGGTTTTTGCTTTCAG
Seq C2 exon
GTTTGGAGATGGTTATACAATAGTTGTACGAATAGCAGGCTCCAACCCTGACCTGAAGCCTGTCCAGGAGTTCTTTGGACTTGCGTTTCCGGGAAGTGTCCTAAAAGAGAAACATCGAAACATGCTTCAGTACCAGCTTCCATCCTCCTTGTCATCTCTAGCCAGGATATTCAGCATCCTCTCCCAGAGCAAAAAGCGACTCCACATAGAAGACTACTCTGTCTCTCAGACAACACTTGACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015243-Abca1:NM_013454:48
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGAATGTGAAGCTCTTTGT
R:
TGGTCAAGTGTTGTCTGAGAGA
Band lengths:
334-1015
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: