MmuINT0008109 @ mm9
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109834985-109836007:-
Coord C1 exon
chr11:109835822-109836007
Coord A exon
chr11:109835133-109835821
Coord C2 exon
chr11:109834985-109835132
Length
689 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCATTTTTAAAAACTTTCAGCTC
3' ss Score
6.73
Exon sequences
Seq C1 exon
ATCACTTTGGCTTTCCTAATGAGTGCCTTGGTGAGGAAGTCTGTCCTCACTGGCCTGTCTGTGTTTCTTCTCACCATCTTCTGGGGAAGTCTAGGCTTCACATCCCTGTACAGATACCTCCCTGCACCTGTGGAATGGACTCTCAGTCTCTTTAGCCCCTTTGCCTTCACACTAGGAATGGCCCAG
Seq A exon
GTGAGGATCTGTTACCTATTGGTGACATCTTTCTTCTCTAGAACTCACTAGCCTGCAATCATTTTCACTTACAAAACTCTAAGATTTAAAGCCCTAGCATAATCACTCTGATTTAACAAAAGCGACCTTTTGAAATCTTTCATGGGATTGGATGCAGCAAAGTAAGCCATTTAGAAAATGTGTGGGAGGGGAGTAAGACAGCATGGATGCTGGAGGGATGACTCAGTGGGTAAGACCACTCTTTCAGAGGACCAGAGTTTGGTTCACAACTGCTTATCGGGGCACCAGGCATACACACCACAAACACAAACTTGGAGGTAAAACACTCATACAAACGAAATAAAAGTAAATATATATATGTGTGTGTGTGTGTGTGTGTATATATATATATATATATATATATATATATATATATATATATATATATATATAAAATTCTAAGTTTGAGCACAAATTCCAACTTTGAACACCCCCTCACTTTTGCCTAATGCTTCTATTTCATATCATGGCACTTACTGTTATAGTTGCGCATATGTCCATACTACAGAAGAGGTTTGGGAACTATAATATACATCTCTTCTATGTTCACAGAACAAAGTAGCCGATAACTATTTTATTACTGTAAAACCCAGTTTGAATTTTAACTTTTATCGTAAATCTATTTTCTCTTCATTTTTAAAAACTTTCAG
Seq C2 exon
CTCTTACGTGTGGATTATGATTTAAATTCTAATGCACCCCCTGATCCAGCCAGTGGCTCAAATCTGATTATAGCAACCAATTTCATGCTGGTATTTGATGCGTTTTTGTATCTGGCCCTGATGATGTACTTCGAAAAAGTTCTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620-Abca8b:NM_013851:8
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(15.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.8=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCACTTTGGCTTTCCTAATGAGTG
R:
ACTTTTTCGAAGTACATCATCAGGG
Band lengths:
326-1015
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: