MmuINT0008100 @ mm9
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109798011-109799115:-
Coord C1 exon
chr11:109799021-109799115
Coord A exon
chr11:109798131-109799020
Coord C2 exon
chr11:109798011-109798130
Length
890 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
ATGTTGTCTTGACAATATAGGCA
3' ss Score
4.98
Exon sequences
Seq C1 exon
CTGTGCTTCGTGCTGAGCATCCTGGGGAACCCATCTATATTGCTTCTAGATGAGCCGTCCACTGGGCTGGATCCTGAGGGGCAGCAGCAAATATG
Seq A exon
GTGAGGAGATGCTGCCACTGGGGTTGAACCCACTCCTAGAAGGGGGCTTGAAAACAGTTTCACTCACTCAGAAATTGTTTTTACCAAGCATAAGGTGCAGGGTTCAGATTCCCCACACCCACACAAAAATCCAGGGGTTATCTTGCTTGCTGTAGTCTGAGTGCTGTGGAGCTGAAGTCAGGAGGAGAGCTGGAGCTCACTGAATAACAAGTCTTGGCTAATTGGAGAGCTCCGGGTTCAGTGAGAGCCACTATTTCAAAAATCAATGTGGATAACAGGATACCCAACCTTGGCCTCTGGCCTCTAGCTACACATGTACACAGGTGCACTTACACACACGTGGCACGTGCACACAGGCACATAAAGCACACAGAAAGAATGTCAAAGTATATCTTAAAACATTTTATGTACATAAAGAAACAAAACTACCAACACCCTTAGTAACAATCAATGGTTTGCAAACTAGCATTTCTCTAGTAATATTTCTCAAACATCTCTGAGAAAGGAAGTACACATTGCATTAGGCTGCAAGCCGCTCCCTGTGTGTACTAGAGCAGCGTAGGGATCTCTGGGTTGGTACAGGAACTTCTGAATCACAAGCATGTGTCTGGTGCTGGGCATCAGAACAGTGGTTCTTGGTACGTTGTAAAACCCGCTATTTATTCTGCAATGACTTCCTTCTGCTGGCTTGGGTGACAGACACTGTTGAGTTCTGCATCATTCTGTCCCCATGTGCATGCCTGTTTTGACAGAATTTCCCTCTTCATAGAAGCTCGTAATAAAATACTGCATCCTGCTGGTGCTCCTTTTCAATGCATGCTTCCTTTTTCTGTCCTTTTCTTATTTATTAGGCTACTATCTAAATTGTGAATGTTGTCTTGACAATATAG
Seq C2 exon
GCAAGCAATCAGGGCCATCATAAAAAATACAGACAGGGGTGCCCTGCTGACCACCCATTACATGGCAGAGGCTGAGGCTCTGTGTGACCGAGTGGCCATCCTGGTGTCTGGAAGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620-Abca8b:NM_013851:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(14.2=62.5)
A:
NA
C2:
NO
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:
CTGTGCTTCGTGCTGAGCATC
R:
CTCAGCCTTCCAGACACCAGG
Band lengths:
215-1105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: