MmuINT0007963 @ mm9
Intron Retention
Gene
ENSMUSG00000044749 | Abca6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:MGI Symbol;Acc:MGI:1923434]
Coordinates
chr11:110073505-110075542:-
Coord C1 exon
chr11:110075426-110075542
Coord A exon
chr11:110073689-110075425
Coord C2 exon
chr11:110073505-110073688
Length
1737 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAA
5' ss Score
4.51
3' ss Seq
ATGTATGTGTGTTTATACAGACT
3' ss Score
7.09
Exon sequences
Seq C1 exon
AGTTCTTCAGTGATCTCGATAAATATTCTGGCCAGGGCTTGATGAGTTATGAAGTTTCCATGTCAACTCTCAATGATGTCTTCCTGAACCTGGAAGGAGAACCAAGTACCAAACAGG
Seq A exon
GTAAAACTGTCTGCATACTTCACAAAAGCAATTTATACAAGGCCATGTATCAAAATAGCGTTTGTGACTCAGTGGTGGTGCACGCCTTTAATCTCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACGGAGTGAGTTCCAGGACAACCAGGGCTACACAGAGAAACCCTGTCTTGAAAAACAAAAACAAAAAAAAAAAACAAACAAAACAAAACAAAAAAAAGAAATGTCACCATTGGAACTGTGGCTTCATTGTTTGACATGGGCTGTTGTGTTTTCTGACCTCATCAGTATGGCTAGCCAGAGGTCCTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTGGCTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTATACCAGGCTGGCCTAAAACTCAGAAATCCACCTGCCTTTGCCTCCCAAGTGCCATTCTTAAGTACTGATAAATGACTCTTTGGAAAACTAGCTACCTAGTATTACACTATCTCCTGATGGCAGTGCTTCTTGGGTTCTTTGAGGCATTTAATGTTCTTTTTTTCTCTTTTCTTTTATTAGATATTTTCTTCATTAACATTTCAAATGCTATCCCCAAAGCTCTCTATACCCGTCCCATCCTGCTCCCCAACCCACCCACTCGTGCTTCTTGGCCCTGGCATTCCCCTGTACTGGGGCATACAATCCCCAGAGCATTTAATGTTTTTAATCAGAGGTATGGGGTCTGACCATTTACTTCTTATAAAAATCATTTCTTGCTTGGTAAGAGAGAAGGCCTCCAGAGAGAAAATTCTTACCAACTTCCAACTAGTTTATTGGGATGTAATAACTGTAATTTTTGATGCTTTCCCTTTTACAGGTAGTTTGTTCAATGTAGACAAACACTAGGATATACCCATATCTCATGACTGTGATAATTCTTTCAGTAAATGGTTGACACCATTTTACAGATGAGAAATTCAGAGTTAAGAACAGTTAGACGATTATTCAGAAGCCATTCCGCTTATAGCTCACAGGTCCGGGCTGCATAGCTATGTTAAATATTTTCAGAGCTGATGGTCTTTTCCTTTCAAGTTCAGGTTATTGACACTTTAGTGTTAAGTATTTAAGCATTGATAACTGCTGATGCCAATGAAGAGGCTTATTTTTGAACTCCTTCGGAATAGTATTATAATTAAACATTTTACCTTTCCAAAGACTGAGCATAGCCAAATTACCCCTTTTCTGAATTCTTGTTTTGGTATATATATGTATATATATATATATATAACATATATTATATATTATATTATATTATATATTATTATTATATTATATATATAATTATATATATATTATCACAGTCATTATATATATATATATATATATATATATATATATATCAGATATTCTCAGAGAGTATGTAGAGATTTGCTATTATGCTATGATTCATACCATATTTTCAATGTAACTCAAGACATTTTTACTAATTTAAAATTTTTCATTACATTGAAAATTATAAAATATAACTATATAAAAAGAAAATACTAAAGGTGGTGATGTTATACAAGCTTAATGAGGTATTGGAAATGTCATTTAAATAATTTCTTTGAATTAAAGTATAAAAATAAGATCAGACAATGATAATTTAAGTTTTTTTATGAAAGAAAGTTTACTGTGCCTTAAGATATTCATAATATGTATGTGTGTTTATACAG
Seq C2 exon
ACTTTGAGAAAAGAGAAACAGCAACAGACTCAGAAAGCTTAAATGACATGGAGGTGGCTTACCCTTCTCTCTCTCAAGTTCAGGAGACTGTGAGCACCATGAGCCTTTGGAGAATGCAAGTCTGTGCTATAGCACGGCTTCGCATCTTAAAGCTAAAACGAGAGAGAAAAGCATTTTTGATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044749-Abca6:NM_147218:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.145
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.4=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTGATCTCGATAAATATTCTGGC
R:
TGATCAAAAATGCTTTTCTCTCTCGT
Band lengths:
294-2031
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: