MmuINT0008019 @ mm10
Intron Retention
Gene
ENSMUSG00000035722 | Abca7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:MGI Symbol;Acc:MGI:1351646]
Coordinates
chr10:80011275-80011842:+
Coord C1 exon
chr10:80011275-80011398
Coord A exon
chr10:80011399-80011712
Coord C2 exon
chr10:80011713-80011842
Length
314 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
AGTTCTTCCTGTCCCCGTAGGAG
3' ss Score
10.62
Exon sequences
Seq C1 exon
AACCTGCAAGAAGTGAGCCGGATCCTGAAACAAGTGTTTCTTATTTTCCCCCACTTTTGCCTTGGCCGAGGGCTCATTGACATGGTTCGGAACCAGGCCATGGCAGATGCCTTTGAGCGCTTAG
Seq A exon
GTGAGACTGTCTGTCAGGTGGGGACTGTGAAGAGCATGATTGAGAGTGCCTCCTTCAAATTCAGTTATATGGAATGGGGACACATTGCCTTTAAGTGAACAATTTTAGGTGGCACAAAAATTGTGTCAAATTAAAGGTGAAGAAAATGTAACTAAAACGTTATATCATGAAAGCTCTGACTATACATAAAGGAGCATGTGAAACCTTATAGTCTAAGTCAGTTCTACCCTAGCAGTACAAGTCGTCTTGGTCACTTTTTTGAGTCTAGGGTGATCTGCACAGAGGGCAAGACCCAGTTCTTCCTGTCCCCGTAG
Seq C2 exon
GAGACAAGCAATTTCAGTCACCCCTACGCTGGGACATCATTGGCAAGAACCTCCTGGCCATGATGGCCCAGGGACCTCTGTTCCTCCTCATCACACTCCTGCTCCAACACCGCAACCGTCTCCTGCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035722:ENSMUST00000132517:37
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:
PF126982=ABC2_membrane_3=FE(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(9.8=75.0)
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:
AACCTGCAAGAAGTGAGCCG
R:
TGTGGCAGGAGACGGTTGC
Band lengths:
254-568
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