MmuINT0008024 @ mm9
Intron Retention
Gene
ENSMUSG00000035722 | Abca7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:MGI Symbol;Acc:MGI:1351646]
Coordinates
chr10:79476057-79476505:+
Coord C1 exon
chr10:79476057-79476163
Coord A exon
chr10:79476164-79476363
Coord C2 exon
chr10:79476364-79476505
Length
200 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
GCTTCCTGTCCCCACCCCAGCGT
3' ss Score
6.23
Exon sequences
Seq C1 exon
TGTTTCGGGCTGCTGGGTGTCAACGGGGCAGGGAAGACATCCACCTTCCGCATGGTGACAGGGGACACACTGCCCAGCAGTGGTGAAGCAGTACTGGCAGGCCACAA
Seq A exon
GTAAGATGCTCCTTGTACCCTGAACCCTGGTTCCTATCCCATGTGTCCCTTGAGTGAACATGGTCCTTCACCAGGTCCCTGGGACCTGTGCCCCTCTGTGCATGGCCCACATACCCTGAGACTCCTGTGCTCTCTGCAGACACCCATGCAATCCTGCGTGGGTGGCCTGTAAGCTCTTTAGCTTCCTGTCCCCACCCCAG
Seq C2 exon
CGTGGCCCAGGAGCGGTCTGCCGCACACCGCAGCATGGGCTACTGTCCCCAGTCTGATGCCATCTTCGACCTGCTGACCGGCCGGGAACATCTGGAACTGTTTGCTCGCCTGCGCGGGGTGCCCGAGGCCCAAGTTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035722-Abca7:NM_013850:40
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(24.1=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCGGGCTGCTGGGTG
R:
CGCAGGCGAGCAAACAGTTC
Band lengths:
220-420
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: