MmuINT0008818 @ mm9
Intron Retention
Gene
ENSMUSG00000029802 | Abcg2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 [Source:MGI Symbol;Acc:MGI:1347061]
Coordinates
chr6:58615098-58617033:+
Coord C1 exon
chr6:58615098-58615250
Coord A exon
chr6:58615251-58616875
Coord C2 exon
chr6:58616876-58617033
Length
1625 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
AAAGGTGACACTTGCTTTAGGTC
3' ss Score
4.45
Exon sequences
Seq C1 exon
GATGACGTTGTGATGGGCACCCTGACAGTGAGAGAAAACTTACAGTTCTCAGCAGCTCTTCGACTTCCAACAACTATGAAGAATCATGAAAAAAATGAACGGATTAACACAATCATTAAAGAGTTAGGTCTGGAAAAAGTAGCAGATTCTAAG
Seq A exon
GTATGAAAACCCCTCCTAGTATTACAGCCAGGGAATTGTTCTGTATAACTTATATAAGCAATATACCCTTATAACAATTTGTCCAGTGGTCTAGTTACTTTTCTGTAGTCTTTCCTTTGGCAGCTTTATTTCTCTTCCTTTCCTTCTACCTCTCCTTCCTTCCTTACCTACTGTCAGCATTGGTTTCTAGACTCCTACATACCAGGCTGTGATAGTAAGAGAGTGACAGAAAGAAGGTGCTTCTGCTCTTGAATGTTAGTTAAGATCAAGAAGAGGGTGAACTTTATAAATCAGCAGTCTATCTAGTTTTGCCTGACTTTGGGCAACAGTTGAAAATGTAATGGCTGTAGTTTAACCCTTCTGCCCATAATTATTTAATTCCTTAGAGGCCATGGATTATGGCAGTCCTAAAGAACTGTTGCTTTTCTTGGTGGTTGCTTGCGTTCATTCATGTACTATTATTTTGTTGGGAAAAATAACCTTGCATGTTTCCATAGACAGCATCAACTTGGAGACTGAAAAGTACTTAAAATGGTGTGGTAGAATGGGAACTCGGCTCCCCCGTCTCTGTCCACTAAGGGACCTTTGGGAGAGAGATCACGGTTTAGGTGCTAGATGGTTATAAACTATGGCCAGTGTGCTTCCCTTTCCTCTTTATTACCTGTATCTCAGCGGGTAACTTGCTTGCAAGCACAAGGACATGACTTCAGTCCCCAGCACCCATGTAAAGCCAGTTTGCACTGGGGAGGAAGAGACAGGTGAATTTCTAGCCAACTTAGTGAACAGCAAAATAAATTGGATGGCTTCTGAAGAATAACAGGCTGTTAAAAGCACAAACCTTTGCCTGGAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCTAGCAACCACATGGGGGCTCACAACTATCTGAAATGGGATCTGATGTCCTCTTCTGGAGTGTCTGACAGCTACAGTGTACTCATAGGTACTCCTCTTTTAAAAAATAAAAATAAATGAATGAATGAATGAATGAACGGACCTCACTTCAGGTCAGGCCACCTTGCAGCTCTAACCAGAGCCTCAATTTACTCATCTGATAAAAAGGAAACTGTCTTCCCCCAGGTATTTTGCTCTGATAAACCAGTAATCTTCAGAGTGAAGACAATAAAGCATCTCCACGAGAGGCGGGTGGTGGGGTGACAGGAGGCGGGTGGTGGGGTGACAGGAGGCGGGTGGTGGGGTGACAGGAGGCGGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCGGGTGGTGGGGTGACAGGAGGCGGGTGGTGGGGTGACAAGAGGCAGGTGGTGGGGTGACAAGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGACAGGAGGCAGGTGGTGGGGTGTGTGCTGACAAGAGACATCCCGAGGCAATCAGGGCTGCACCATTTGGTCTGTCTACCAAATGATGGCAACCATGTTCAGTCTTGTTGACAAAGGTGACACTTGCTTTAG
Seq C2 exon
GTCGGAACTCAGTTTATCCGTGGCATCTCTGGAGGAGAAAGAAAAAGGACAAGCATAGGGATGGAGCTGATCACTGACCCTTCCATCCTCTTCCTGGATGAGCCCACGACTGGTTTGGACTCAAGCACAGCGAATGCTGTCCTTTTGCTCCTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029802-Abcg2:NM_011920:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(33.1=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(23.8=67.9)
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:
GATGACGTTGTGATGGGCA
R:
TTTTCAGGAGCAAAAGGACAGCA
Band lengths:
310-1935
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: