BtaINT0010894 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003472 | ABCA12
Description
Bos taurus ATP-binding cassette, sub-family A (ABC1), member 12 (ABCA12), mRNA. [Source:RefSeq mRNA;Acc:NM_001191294]
Coordinates
chr2:103572012-103573267:-
Coord C1 exon
chr2:103573121-103573267
Coord A exon
chr2:103572199-103573120
Coord C2 exon
chr2:103572012-103572198
Length
922 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGA
5' ss Score
5.9
3' ss Seq
TTCTCTTGATTTCTCTCCAGGTC
3' ss Score
10.46
Exon sequences
Seq C1 exon
GTACATATGGTATGGCAGCTCCGTGGTATTTTCCATTCCTTCCTTCCTATTGGAAAGAACGATTGGGATGTGCAGAAGTGAATCATGAGAAAAGCAATGGGCTTATGTTTACTAATATCATGATGCAGAACACCAACCCATCTGCCA
Seq A exon
GTAAGACAAGTAGGTCAACAACATGCATTATTATGAGAGAAGTGATGTAAAATTTACATGACTAGTGATTTTAATTATGTTTTTCTAAATGGCAAAATTATCATCCTTTTAGTCATGGATGAATATGTCTACACATATGTGTTTGGACTCTTAGGGAGATTAAATCGTGGCCTTTTCTGGGCTCATTAACTCAGTTGGTTAGCATATGGTGCTAATTAGGCCAAGATTGCAGATCCCTTTGTGGTCCAGTTAGATCCACACAGAGAAAAATTTTGTTCCTTGGCCACAGTCTGCACCCCTCACTCCAGCCATCTGTCACTAGTCATAAGGAGTAACCAAGTAACAAGTATGGATAATTTAGCATAACCCATCACCAACAAAGAACAAACAATTTAAGGCTTGTGACTTCCTGACATTGGGTGAGCAGTGTCAGTTTTATAAAGTAAGGATGAGCCATATAACTAGTTCTTTTGTGATGCATGAAGGAAATGTAGAGAGTAATTAATGAACTGATTCTACAACCACAGATCTGAGTAAGCATTGTCCACCAAGTATAGACATTTATTCTATACATAAGTATCACCCTGTTCAGTTGGAAGACCAAGCCTTAAACTTGTATTTTGAATTTTTGAGATCTTTGATTTGAATAAAGGAGAATTCAGTATTATGATACTATATTCTGAAACTTCTTTTTCTGACAGAGACAGGTAATATAAACCTTAGAGTGTGGTTCCAACACTCTCATTCATTTTTAAAACAAGTGAGAAGGTGGAAGACTATAATAGACCATTTATATCTGGAATTATTTTTTTACTTTGAGGCTTGTGTCTATAGTCTTTGGTTTTTAATTAAGGAAAAGTCTAAATCTAGCTGCATTTTCTTTCCTTGTAAGCTTACAACTCTTCTCTTGATTTCTCTCCAG
Seq C2 exon
GTCCTGAATACAAATTTTCCTCCAACATTGAGCCTGAACCTAAAGATCTCACAGTTGGGGTTGCTCTGCATGGGGTCACAAAGATCTATGGCTCAAAAATTGCTGTTGATAACCTCAATCTGAACTTCTATGAAGGTCATATTACTTCATTGCTGGGGCCCAATGGAGCCGGGAAGACTACCACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003472:ENSBTAT00000004518:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.048
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.4=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACATATGGTATGGCAGCTCCG
R:
ATGGTGGTAGTCTTCCCGGC
Band lengths:
334-1256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]