MmuINT0008079 @ mm9
Intron Retention
Gene
ENSMUSG00000020620 | Abca8b
Description
ATP-binding cassette, sub-family A (ABC1), member 8b [Source:MGI Symbol;Acc:MGI:1351668]
Coordinates
chr11:109826255-109828133:-
Coord C1 exon
chr11:109827995-109828133
Coord A exon
chr11:109826346-109827994
Coord C2 exon
chr11:109826255-109826345
Length
1649 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
CTCTCCTTCTTCCTTTTCAGATA
3' ss Score
13.92
Exon sequences
Seq C1 exon
ATTTTCCTACTGGATGAGCCCACCGCTGGCCTGGATCCCTTTTCAAGGCACCGGGTGTGGAATCTCCTGAAGGAGCGCAGAGCAGACCGTGTGGTCCTCTTCAGCACGCAGTTCATGGATGAGGCTGACATCCTGGCTG
Seq A exon
GTAATGGCTGGCTCCCTTAGGCATCATGATGAGGGTATTCAGGAACCTGAGAACCACAGATCAGGGGTCTGTGGACCTATATTTTAGCCTCCTGATCCAAACATGTGGTGATGATGTGAATTTAGCACAAACATTTTTATTAGATATTTTATTTTCATTTCAAATGTTATCCCCTTTCCTAGTTTCTCCTCTGAAAAATCCCTTATCCTCTCCTCCCTCTCCCTGCTCACCAATCCACCCACTCCCACTTCCTGGCCCTGGCATTCCCCTATAATGGGGCATAGAACCTTCAAAGGACCAATGGCCTCTCCTCCCATTGATGACCGACTAGACCACCCTTTGCTACATATGCAGCTAGAGTCAAGAGTTCCACCATGTGTCTTCTTTGATTGGTGGTTTAGTTCCCAGGGAACTCTGGGGATAGTGGTTAGTTCATATTGTTGTTCCTCCGATGGGGCTACAAACCTCTTCAACCCCTTGGGTACTCTCTCTAGCTCCTTCATTGGGGACCCTGTGCTCAGTCCAATGGTGGCTGCGAGGATCCACTTCTGTATTTGTCAGGCACTAGCAGAGCCTCTCAAAAGACAGCTATATCAGGCTCCTGTCAGCAAGCTCTTGTTGGCATATGCAATAGAGTCTGGGTTTGGTGGTGGTTTATGGGACGGATGCCCAGGTGGGACAGTCTCTGGATGGTCATTCCTTCAGTCTCTGCTCCATACTTTGTCTCTTTAACTCCTTCCATGGGTATTTTGTTCCCCCTTCTAAGAAGGATCGAAGTATCCACACTTTGGTCTTCCTTCTTCTTGAGTTTCATGTGTTTTGTGAATTGTATCCTGGGTATTCTGAGCTTCAGGGCTAATATCCACTTATCAGTGAGTGCATATCATGTGTGTTCTTTTGGAGCACAAACATATTAACATCAATTATTTTACTGGGTCATGTATGTGCATGCATGTATGGGTATGTGTGTGTTCATATGCATGTAGGTACAGATTTGTATGTTCTTGTGCTGCCCAGAGGAAACCCTGGGCATTGTTCCTCAAGAGCTCTTTGCCTTGTTTTGTGAAACAGGATCTCTCTGGAGGTTAGACTGGATGGTAGTAAGTCCCAGGGATCCACTGTCTGTCTCGACCTCCAATTGCAAACTGACAAACTCAGCTTTGTTAATGGGTTCTGAGGTCCACAGGTCCTGAACTTGTACAGCACGCACCTTAGTGACTGGCCTAGCTCTCCAGCTCCATTTCAGCGTATCTTGTAAATGTGTCATTAAAAGTTGTGTAGAGGCATGAACTGCCAAGAAACTCGCTGTAAATAAAGAAAGTCTACATTCTAAAAGCTTAATTCTTTTGCTCAGATCTGAATTAAATCAACTTGGAATGTTCAAATGCTTCTAATGTTTGAGCTATTAAAATGTGGACTATGAATCCACATGGTTTAGTCTCCTCGATGAGTTAGACAATGAGAAATCAGCCAAAGGAGAGAAAAAAAAAAAAAAAAGCTATGCTTCACGGAGTCTTCGTTAAGTCCGGTCTGGAACAGGAAATGTTTCTGGATTGAATTTTAAAGCATATAAACAATTGTCCGTCTTTTCTCAAAAACAAAATGGCCCACTTCTATATAGACTGTCTTCTCTCCTTCTTCCTTTTCAG
Seq C2 exon
ATAGGAAAGTGTTCATCTCCAATGGGAGGCTGAAGTGTGCAGGATCATCGCTCTTTCTGAAGAAGAAATGGGGAGTTGGGTATCACTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020620-Abca8b:NM_013851:15
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:
PF0000522=ABC_tran=PD(5.4=17.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTCCTACTGGATGAGCCCAC
R:
CTTAAGTGATACCCAACTCCCCA
Band lengths:
230-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: