BtaINT0010839 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020661 | ABCA1
Description
Bos taurus ATP-binding cassette, sub-family A (ABC1), member 1 (ABCA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001024693]
Coordinates
chr8:96325678-96327915:-
Coord C1 exon
chr8:96327675-96327915
Coord A exon
chr8:96325818-96327674
Coord C2 exon
chr8:96325678-96325817
Length
1857 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GCCTTTCATCCTTTTCACAGCTC
3' ss Score
9.86
Exon sequences
Seq C1 exon
CTGTTCAGCATGAGGAGCTGGAGTGACATGCGGCAGGAGGTGATGTTTCTGACCAACGTGAACAGCTCCAGCTCCTCCACCCAGATCTACCAGGCCGTGTCCCGCATCATCTGCGGCCATCCCGAGGGCGGGGGCCTGAAGATCAAGTCCCTGAACTGGTACGAGGACAACAACTACAAGGCCCTCTTCGGAGGCAACGGCACGGAGGACGACGCTGGCACCGTCTATGACAACTCTACAT
Seq A exon
GTGAGTGTCTACGCAGCCAGGCCCTGGCACCACCTCCGTCCCAGACTCAGCCCTGTGGGCCCCCTCTCTCCTGCTCACCCTCGTCCTTCATAGCAGCAGTGGGTACTTGTCTGCATGTCTATTTGCCATCCAGACACACCTCCTAGAAGAGGGAATCTTCTCCTAATCAGCGAACTATCCCCACTTGTGTGAAAGGGGACTTGGCGCGTCCCAGGCATACAGTGTTTTCATCAAGTGAATGAATGATTGAACGTCACTCTCTCCAGTTTTCTGGGGTATGTCTGAAGGTGGTTCCCAGAGTGCTCAAGGTTCTTCTCATTCTCCCCATCTCCCTTCCCTTTCCCCCCTGCTCTCCTTGAGATATGCTTTATAATAAAAACTTAACAATAACAACAATAATGAAAGATAGCATTTAGGGAACATTTCCTATGTCCTTTGCATTTTTTTTTTTTTAAAGTTAACTCATTTAACCCTTATGGTAACCCTGCAAGGAAGGTTTTTTTTTTTTTTTTTTCTTTTTTGACTATGCGGGACCACAGCTTGTGGGATCTTAGTTCCCTAACCAGGGATGGAACCTTGACCTCTGTCAGGGAATTCCTTGCAAGGAAGGTTTTATAGCCCCACATTTTGTAGGCTTGGAGAGGTTCAGTAACTTGGTCAAAGTCACACTGTTGTTAATTCACAAGAACCCAGATGAAACCTGGTCTGCCTGGCTCTATGCTTTTTGTCCATAAACACATGACCTCCAGAATACCTGTTCATGGTGGCGTATGTGCCATCAGACTCAGGCATTTGATCTGCTGTTTGTTTTCGGTTCTTAGCTACAAGGTGTCATTAGAGAACCTTGTTACACCCTATCTGCTCCCCACGCTTGGGCAGTTTTGTGGTGATGTGTGTCCTGTGCCTGTGGCAGCGAGGAGCCGGTGTTACAGCTGTAGACAATGGCATTGTTTTCCTTGAAAACATGATGCAAGTGAGCCTTTCTCCATTTCTAACCGCAGGTGTGTCTTTCAGACACTGAGTGAGGTGGATTTTAGTGCATTACTGTAACATAAGAACCTTTTATTCTTCTCTGGAGTGAAGCACTCCAGCCGTGGCAGGTTGCTTTGTGAGCCTGAAGGGAAGGGCGTTCTGAAATGCCATCCCCTCTGCTCCCTCTCTTTGTAAGTCAACCTGAGGGAACCTTCATTTTCACAACAGCTACAACTGTGAGCAAGTCCTCTTTTTTGTTTTTGTTTTTAAATATTGTCTTTGCAGCATGTAGAGGGTACTTGGAATCTAAAAGAACCCACAGTGAAATTTTTTAAAAATTTGGGAATCTTTCTGGATAATCAAACCTTATTATCTATTATGACTATGTATTTTTCACTTTGGGATATTCATTACATTTATTACAGGTACTTGTTATGAGACTTAGTAATTGAAGGGAGATTTTTTATTTCTGCTTGAAAACTAAAGTCTGAAATTCAACCCTCTGTTTCCAGTGGAAACAAAGTGTTGCAGGCTGGCGTTAAGTCATCTAGAGTTGCAACTCTAGGCTTGTGCATAGTAAAAAGTATTTTTCTATATTGTCTCAGTTGTGACATCATCAGTGTTATAATAAACTTTGATTATTTATCCAGCATTGTACTAGGTATCATCTCAGTTAATCCTCTCCACGTCTCTCCTAAGTAGATGTCATTAACTTTAATTTTACAGAGGAGTCAACTGAGGCACAAATCTGAAGTTGTTACATAACCATTAAGTGGCAGAGCTGAGATTTAAACCTATGACTGACCAGCTGGTTCTAAAGCTTTTGTTAGTTTCTACAAATATATGACCATGTATACAAATATTTGCCTTTCATCCTTTTCACAG
Seq C2 exon
CTCCTTATTGCAATGATTTGATGAAGAATCTGGAGTCCAGTCCTCTTTCTCGCATCATATGGAAAGCTCTCAAGCCCCTGCTTGTTGGAAAGATCCTGTATACACCTGACACTCCAGTCACAAGGCGGCTTATGACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020661:ENSBTAT00000027538:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCAGGAGGTGATGTTTCTG
R:
TCATAAGCCGCCTTGTGACTG
Band lengths:
346-2203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]