BtaINT0010895 @ 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
chr2:103569880-103572198:-
Coord C1 exon
chr2:103572012-103572198
Coord A exon
chr2:103570099-103572011
Coord C2 exon
chr2:103569880-103570098
Length
1913 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
TATGGTTTCTTCATTTCCAGCTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
GTCCTGAATACAAATTTTCCTCCAACATTGAGCCTGAACCTAAAGATCTCACAGTTGGGGTTGCTCTGCATGGGGTCACAAAGATCTATGGCTCAAAAATTGCTGTTGATAACCTCAATCTGAACTTCTATGAAGGTCATATTACTTCATTGCTGGGGCCCAATGGAGCCGGGAAGACTACCACCAT
Seq A exon
GTATGTTACTTTTCAATACTTAGGTGTCATGGAAGCATATTACTTAATATTTCCCCAATTCTTTCATAAAAATAGAGTTGTTAAAGCTCCCAGATGGACCTCAACTTGCTTACTGTAGAAGCAAGTTTAAGCCTGTGAGCTCGAAGTCTGGATCAGACCCACCAGATAGGTTCATTTTGGTCTACCTAATATTGGCCCACTATTACTTCTCAAAATATTTTATTCCTGTGCCAGTTTTCAAATAAAAATAGGAGAGTTTTCAGATAAAAATAAACATTCCTGTCATCTCTTAAATATTAGAAAGTTTTGGAAACATTGGACCTACAGGCTTAGATAGAGACAATTGTTTTGGACTTATTAGTGACTGTTCTTAAAGCGGGTTTAATGACTGTTCTTCATCCCTGCTCCCCACCAACTTTACTGCCTCATACAGTCAGTCTGTTTCACTTATTTGCATTTTTACCCTGGCCTGTATACCAGTTTGGATTCACAAATCTTGGTATAAACACACTCAGCCCCATCTGTTCTATTAAATGGATCCTTTGCCTGGATTCATGAAAGAAAGAAAAAAGAAAAGAATCACTAGCTATCAGATATAGATCAAAAGTTCACAAACAGTACATGGGCTGTTCTTCCTCTCTCTTCACTTAACTAGCATTTTCCTGTGTCCTGATGGAGAAAAGATTTGAATGGTTTTAAAAGTGACATTGTTTTGAAATTGTTTCTGTGACTTACCTCCAGTGCTCCACTAGGCTTTGCTTGGAGTGAGCTGTAAGATGCTGCTGGTGTTCTTGTCTTATTTGGGAAAAAGTATCCATTTTCAGATATGCTGTTTACTGTCATCATGAGTAAGCTCAGTGAGTGCCAAAACATATTTTTCAGTAATTAAAAGGGGACAAAAGAGAGTTATGAAAGGAGCAAACATGAAGCTGCTCTCATTTATACGACCTGTTTCAATGCAGAGTTGGCTTTCTAGTGAGAATGTACTGTGTTTGTGCTAAATCTCTTCAGTGGTGTCCGACTTTGTGATCCTATGGATTGTAGCCCACCAAGCTCTTCTATCCATGAGGATTCTCCAGGCAAAAATGCTGGAGTGGGTTGCCATACTGAGAGTATAGTGCTTAAAATTAAGATTTCTAATAAGCAATAAGAGGACAATAAAGAAAAGGAATGGAGAAGGATTTTGAAGAGGCTATAATTTTAGCTGAAAAAGTCCCCATTGTAGTTTTCTGAGTATAAGGAATGTATAAAGAAATACGTTATTTGATTTTAATGCATTTTTATGGGAAGAATCACACATTGTATTGATTCCCTATTTAATCCACAATAGTCCTTTAAGATCTGTTATGTGTAAGACACTAGTTAGATGGTAAGAGTGGTACAAAAAAAAAAAAAAAAAAGTCCTTTCCTTGACTTCATGGGGCTTACATTTTAGTGGAGAAGATGGATATTAAATAACTGCCCAGTTTACTGACCATCTGAAGTACGATGAGGAGTTCTGTAGGTGAGAATATTCAAGTCACAGGGTAGAGTGGGGGACTGAAGATGACCAAAGTTCACGTGGGAAATAGAAATTTGAGGCTTAATGGCCTATGGGAACTACCTGATGCCAGGGATGTGTGGGAGCTTGCTGAAGACGGGAGTGCATTTGCAATTAGAAAGCCCAACCCTTTCTGTCATTATTGCCACCACGACCACCATCATCATCACATGTGCTTCTGTAACACTAAAGTATTGGGAGCTTAAAAGCAATTTTAATTTTTACTCCCAATTAATCCGATTTTACTTCATAGCTTGACCTGCCCTGGGAAGATACACCGTAACATTTTTTGCTAACAGCTGAGATATATTTAGTCCAAAAACCTAGATCAAAGTTTTGGTTCACACCTAACTTATGGTTTCTTCATTTCCAG
Seq C2 exon
CTCCATGTTGACTGGACTGTTTGGGGCCTCGGCAGGTACCATCTTTGTTTACGGAAAAGATATCAGAACAGATCTGCACGTTGTGCGGAAGAACATGGGCGTCTGCATGCAGCATGATGTCTTGTTCAGTTACCTCACCACCAAGGAGCACCTTCTCCTCTACGGCTCCATTAAAGTTCCTCACTGGACTAAAAAGCAGCTGCATGAAGAAGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003472:ENSBTAT00000004518:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.4=42.9)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=100)
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:
CTCACAGTTGGGGTTGCTCTG
R:
TCACTTCTTCATGCAGCTGCT
Band lengths:
355-2268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]