MmuINT0008817 @ mm9
Intron Retention
Gene
ENSMUSG00000029802 | Abcg2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 [Source:MGI Symbol;Acc:MGI:1347061]
Coordinates
chr6:58614438-58615250:+
Coord C1 exon
chr6:58614438-58614552
Coord A exon
chr6:58614553-58615097
Coord C2 exon
chr6:58615098-58615250
Length
545 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
AAATGCCACCTTGCCTTAAGGAT
3' ss Score
3.96
Exon sequences
Seq C1 exon
GTTGCTAGATGTCTTAGCAGCAAGGAAAGATCCAAAGGGATTATCTGGAGATGTTTTGATAAATGGAGCACCTCAACCTGCCCATTTCAAATGCTGTTCAGGTTATGTGGTTCAA
Seq A exon
GTGAGTATAAGTAGATTTGGTCAATATATGTGCAAGTATGTTTGCTTATGGTGTAGTTTGCTTCCAATTGAATATATGACATGCTATGTATTTGCATCAGCTTTTTATAATCTTCCACTACTCTGGCAGTGATATTAAGGGAAATACAGTGTACTAGGACCCTTGTGGGACAGTGGTATCAGTTTTTGCTGCTATATGATTTCCACCAAAAAAAAAAAAAAAAAAGAATATGTTTACCCATCCTTTACTTTCCTTCTTCCCATTGTAGCTGTCTTTCCCAACTCCTTCCATCAGGCAGCCTTGAGATGTGTAGTAGTGCTTTTACACGTGTCCTGTTGGGGTGTACGGCTGGGTAATGAAAATGATGCCATTGAACTTTGCATGGGTCTGTATATGCAGCCACTACCACTTAAAAGAGCTTGCAGTTCATCAGTAGCCAGAGTTTTACCTTGGATGTATTATGTATATGAATTGAACTATATATCCTCAAGGCATGGTCATAGAAAAGACTCCCATATCTCACTAAAATGCCACCTTGCCTTAAG
Seq C2 exon
GATGACGTTGTGATGGGCACCCTGACAGTGAGAGAAAACTTACAGTTCTCAGCAGCTCTTCGACTTCCAACAACTATGAAGAATCATGAAAAAAATGAACGGATTAACACAATCATTAAAGAGTTAGGTCTGGAAAAAGTAGCAGATTCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029802-Abcg2:NM_011920:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.159 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(51.9=90.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(33.1=100)
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:
TGCTAGATGTCTTAGCAGCAAGG
R:
AGAATCTGCTACTTTTTCCAGACCT
Band lengths:
263-808
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: