MmuINT0007972 @ mm9
Intron Retention
Gene
ENSMUSG00000044749 | Abca6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:MGI Symbol;Acc:MGI:1923434]
Coordinates
chr11:110051493-110053051:-
Coord C1 exon
chr11:110052932-110053051
Coord A exon
chr11:110051571-110052931
Coord C2 exon
chr11:110051493-110051570
Length
1361 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CTACTTATTTTTCTTTTCAGAGA
3' ss Score
10.05
Exon sequences
Seq C1 exon
GTCATAGCCATTACGTTTGAAAAAGTTGCAAATGGTCCCTTCAATGAAGCACTGGTTATTTCTGCCACAATGTTAGTACCTTCCTTTGCATTGAATGGACTCCTGGTTGTCTTGGAAATG
Seq A exon
GTAAGAAATGTCACCAACTGTTCCATAAGAAATTGAATATAGAAGCTATTGTCTGTGCCTAGATTTACAGAAATAGAAGGTGGGTGAGTGGGCTCGGAGAGAAGTATTGCTCTTTATAATTAGATGTTCTGAGGTTCAATTGTGGCCATGCTTAAAAGAAGTCTCAGAAGAACTGTTAAAATGCTATGCCAAAGGCACTTTACAAAAATGGTACACATGATTGAATGCTATTAGAAGCCACAGCCAGATTTCAAAAGAACTTTCTACTTCGATGGGCGCTCCCGAATGACAGAGGAGAAGTTCACATGTAACACTGTTCAGTTACTCATGGGTGTGTATCAAACACCGTTCTCCGTGCCAGTGATGAGCAAAGCTGTCCAGTTCTTCCTTCATAGAGCATAGCAGAAACAAAGACAGATCAACCTCGAGCAAGTCATCGTGAGCTTTAAGTGAGCCTAAAGATTACAATGGCAACAGGCCACGTGCTGGGGAAGACCGTGCAACGCAAAGCTGTGTGCCCTTAGTAGTCAAAGAATTCTGGAGAAATGATGTCACTAAAGGATGAGTAAGAATTAGGGGGTGATTAAAAAAATAAGCATGCCCTGCAGAGAAACTCCAAGACCTTGGGAGATGAGAGACCATAGAGAGTCAGAGAAACTGAGTATCATGCATGCCAACAGAAGCTCGGTTGAGATCACAGTTTTGGGGAATCCTCACAACTTTCGATGAAATGGCTTTAAGCAGGACATACCAAGTTTCACTAATTGTATTCTAGGGGGGAAGGGGAGATACTTGTCCACCACAAAAATGCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCTGATGACATAGCAATGACTGCAAGTTATGGCCACACCTGGTCCTTTTGCTTAGTACTTTTCTTCTAAGACAGAAGTAGACATCACACACAAATCTAGACTTGTTACAGGGGAGTCAGGAGTAATGACAGGCTTCCTCTAGAACTGCTTGATGATAAAAGAATAAGGTCCAGGGCTATGAGTTTTGCTTGAGAAAACAGCCATCACTGAGAGAAGACAGATCCTATGAATGGATTTACGTGGGAAACTTTAGGACAAATAGCTTCATTCCCGAACTTTATACAATGTAAGCACTGGTCTCTGTTTTGCTTTCAATAAATGTTTTTATTTTAAGACAGACGTTTTTTTAATGGAAGGTTATCTTCATATTGAGAAAGGGTGTTTAGTGGGGGGCTCCTCTCTTCTCTAGGGCACATGTCATCAGTGTACACAGAACTATGAAGAAAATGGTCAATGTGCAAAACATTATTGAAATGTGAACTGTGAAGAAAAATATATTTAGCTACTTATTTTTCTTTTCAG
Seq C2 exon
AGAGCCTATCAGTACTACATAGAATTTGAAGAGATTAAACATGGTTTATCTGCGGTTGATCTTCTGTTATGCCTAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044749-Abca6:NM_147218:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(10.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(6.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTCATAGCCATTACGTTTGAAAAAGT
R:
TATTAGGCATAACAGAAGATCAACCG
Band lengths:
198-1559
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: