MmuINT0008814 @ mm9
Intron Retention
Gene
ENSMUSG00000029802 | Abcg2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 [Source:MGI Symbol;Acc:MGI:1347061]
Coordinates
chr6:58640525-58642445:+
Coord C1 exon
chr6:58640525-58640613
Coord A exon
chr6:58640614-58642236
Coord C2 exon
chr6:58642237-58642445
Length
1623 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTGTGTATTTTCAATTTCAGATG
3' ss Score
10.88
Exon sequences
Seq C1 exon
GCTTTGCAGTATAATGAATTCTTGGGACAAGAGTTTTGTCCAGGATTCAATGTAACGGACAACAGCACTTGTGTTAACAGCTATGCAAT
Seq A exon
GTAAGTTTGTGTTCAGTGTCACAGTATGTTTGAGTCTTACTTTGGTGTGCTGTAAATAGTTGCTGCACTTAGAGGTGGGATGAGTCAAACTTTTGAGTCTTAGTTTCCTAGTCTGTAAAGGGACTCTCTGTACTGTAATTCATATGAGCATGTTGAACAGCTTGTATAACTTATCACAATTAGATCCATATTTAGTATAAAAAATGCTTCCTATATATTGACTCAGACATTTTATAAGTCCCTTAGTTATTTTATTGAATGTCAATTTGAATTCTTACACTTCAGAACTTGTGGGTTATAAATGGACGGCTTCGATAGTTTGGAAGGGACTTGTGGTCTCTGAACTAGAATGGGTTCTAACCCAGAGCCCAGCATAGAAGATGGTCATAAGCACTAGGACAATGAATGCAAGAATGGAGTCCCAGATCACTGTGACCCTGTCACCTCATGCTTCCCCAATGGCTTTAGGAACATCATGGAAGACAGGCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAACAGAATTGAAAATCTCCCTATAAGAAAATGCATTCTTTCAAAAATTAAAATAGAATTCTGGTCCTAATAAATTAGATGACCTTATTTTAAAACGTTAATCCTTTTTTATGATAATTGCTAATAGTTTGATTTTTAATACAGAAATTAATGAACAAAAGAATGCTGGTCTCCTGAATCTTCAGTTGTAGAAATAATTGCTGATAATAGAATGATTTTTCTATTTTTGGTTGTGAAGAGAGAAACTTCTGAAGAGAGTTTTTTTCTTGAGCTTCTCTTTGCATGCCCACTTCACTTGCGTTTGCTCTGGGTGTGGCATCTTTCCCTTCCTGCTGATCTTTTCCTTTCCTGAGGGAGGGAGTGGACAGGAGAAGTGGTACAGAGAAGGAGGATCCTTGGCAGGCTTCATTGTCACATAAGGTTCATACTGACAAGGAGAAACCTGCTCTTAAAGCAGAGAGGGATGGCTGTTTAGGGAGCTGCTGAATCCCACCATGCACTGGAAGAGCAGCCACATAGGGTAAATTCACTAAGGCCACTCCATCCTGCTCTGATCTACTTACCCTCTATGGCTGTCAGCAGTGTCCTCCAGCTGTGAGTGTCTGCAGTGCGAGAGCTAACAGATGTGACTGGCTGGAAGCCCTTGCTCCCTTCTTGACAGCTGTAGCATTCTGACCTTTTTCCTTCGCTCTGTGCCTGAGCAAACTCCAAGTGAAGGACTGAGCCTGGTGTGGCTACAGCTGAGCTGCTCTAAAGGCAGTTGATGAAATGTTTCTGCCCTTTGTAGACAGAAGTGTTACAGGTTTAAAATTAGTGAATCTGAGGAGGCAAGAAACTCAGTTCACAGTGAAGACTGTTATCATGGCCAAATTTGTTAAACTACTTAACAGTTACACTCTTTTAGATTGTTTTAGAATTAACTAAACTTAATTGGGTACAAGTTGCTTAGCATATTATCTTGTAGAGAAAGTATTTATTTGGCTAATCAATAGGTTTATATAACAAAAGAAATGCTGAGTATATTGATTAATTTTTGAAAAATGCTAGAAATGAAGTTAATTTTGTGTATTTTCAATTTCAG
Seq C2 exon
ATGTACTGGTAACGAGTACTTGATAAATCAGGGCATCGAACTGTCACCTTGGGGACTGTGGAAGAATCATGTGGCCCTGGCTTGTATGATTATTATCTTCCTCACAATTGCCTACCTGAAATTGTTGTTTCTTAAAAAGTATTCTTAATTTCCCCTTTAACGGACTATTAATTGTACTCCAATTAAATATGGGCACTTTGATTACCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029802-Abcg2:NM_011920:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106119=ABC2_membrane=PD(2.8=20.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTGCAGTATAATGAATTCTTGGG
R:
TGGTAATCAAAGTGCCCATATTTAA
Band lengths:
296-1919
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: