MmuINT0008119 @ mm9
Intron Retention
Gene
ENSMUSG00000041797 | Abca9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:MGI Symbol;Acc:MGI:2386796]
Coordinates
chr11:110000833-110002962:-
Coord C1 exon
chr11:110002823-110002962
Coord A exon
chr11:110000953-110002822
Coord C2 exon
chr11:110000833-110000952
Length
1870 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TTTTTTGTTCCTACTTTTAGACC
3' ss Score
10.44
Exon sequences
Seq C1 exon
TTTGCATTTGAATGAAGCGTGTGATCCAGAGGGTATAACGTCACTGGTCAAAAAGCACATCTCCGACGCCAGGCTGACCACGCAAAGCGAAGAACGGCTTGTCTATATCTTGCCCCTGGAAAGGACAAACAAGTTTCCAG
Seq A exon
GTAATCCTGAACAAGTGACACGGCTCTCTGGGCTTCGGTTTTCTCACTTGTACCAAGGAAAAGGCAGCCGTAAGCTTTCTGAGTTTGTTCTGATGGTTAAATTATCATGCAAAACATTTAAACCTATTATTAAAATGTTAGGTATCAACAAAGCGTAGAGGGACTGTGTCTGACATGTGGTTACTGCAGTGTTTCTCCAGCTCTAAGATATCAATAGGTAGAATGTGTGACCAGAAGACAAAAAGAAAAGATGCTGTCTTTCCAAATCATGATCCATCTTCAAGTCAGAATATCAGACGTGGTAGTGTTCTTTCTTTTTAGGGATCATTTAATGGTATTTAATATTTAATAACAGACACAGTAAGAGTACCCCATGTACTTGGGAGGAGTTGGAGGGGGGGAGAGCCGGGGAGTAAATATGATAGAAATACATTTGTACTTGTATAGAATCCTTAAATAATGAGTTAACTTTTATATATTTAAAGGGGGAAGAAATGAACTCATCCTGGGAGCAGGGGCATGGTTTTTGTCTTAGGTGCACACACAGTACCTCTGAGATGCATCTCATTACGAAGTCTTCATGAAGACTGAACATCTCAGTTTGCTCCACCATTTCTTAAAATGCATTCCAAAGAGCCGAATTATTTAAAGAAAGGCTGGAAAGTGGATTTAAGAAACTGGGAGTGCTTTTTATAGTTTCCTATAGCAGATAATTACGATAGCTTCAGTTCCCAGCATCCTTTAAAAATTCTCAAAGTGGACTGCTCATTGTTCACACGGATGTACCCTATGTCAGCGTTTCTGTGTAATTCTCATAGCGGATTTAGAAGGAAAGAGAAAGAAGAGGTGGTGGGTGGGAAGAGAACATATCAGCCATTGGGATATCTTCCAGGGAAAGCACAAAGACACAGCACACATTCTGCCCACTCTGTCCTTTTCTTCATTTCTACTTTCCACACAGAGTTCACGGGAATTATTTATTTCTATATACATTGTTGTTTTGCATTTGTTATTATAGCTTTTTAAAAAAACAAATCTTAACCTAAAATAATAAATATTTATTCTCTCGATACTATTCTTTCATTATAGTTTAGAATTAAACACCCCCACAAGAGAATTTAAAGTAGAATGAAGGAGTTGGAGAAAAGGCTCAGTTGTTAAGAGTGCTTTTTTACTCTGCCAGGGGATCCAGGTTCACATCATAGCACCCATACCAAAGAGCTCACAACTACTTGTAGCTACAGGAATAAGAGATGTTTTCTGGCCTCCATGGTGAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTACGTGCTTGCACGCACACACACACACCACATAAAAGTTTGAAATTAAAAACAATTTCACATATTTTAAGGTGTTTGAATGTTTTGCCTACACCTGTGTACAATGTGTGTGCATGATGCCCATGGAAGCCAGAAGAGGGTGTCAAATCCCTCAGAACTGGAGTTAGAGGTGTTTGTGAGCTGTCATGTGGGTCCTAGGAACAGAACCTGGGGCCTCTGCAGGAGCAGCAAGTACTTTTAAGTACTGAATCATCTCTCCAGGCGCTAACATTAAAAAAATGTTAAACACATCCATCCAGTTTTTTAAAAACTGAGGAAATTTCTAAGTATAGAAGCATAAAGGTTTATGTTATACATTGGTGCTGAAGAAACCATGGGAACTAATATAGTCTACAGATAGGTATTATGAGTAAGTGAACACAGATATCAATCAGTTTATGATAAAAGCACATGTAGTTTAGTATCAACATTTTCTCATTTTGAAAGATATCACTAACTACATCATTATAAATGATACTGTAATCTACTTTTTTGTTCCTACTTTTAG
Seq C2 exon
ACCTTTACCGGGATCTTGATAGATGTTCTAACCAAGGCATTGAGGATTATGGCGTTTCCATGACAACCCTGAATGAGGTGTTCCTGAAGTTAGAAGGGAAGTCGATGGCTGATGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041797-Abca9:NM_147220:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCATTTGAATGAAGCGTGTGA
R:
TCATCAGCCATCGACTTCCCT
Band lengths:
254-2124
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: