BtaINT0010824 @ 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
chr8:96364591-96366490:-
Coord C1 exon
chr8:96366349-96366490
Coord A exon
chr8:96364710-96366348
Coord C2 exon
chr8:96364591-96364709
Length
1639 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TTTTCTTGCTCCCCCTGCAGTGT
3' ss Score
10.52
Exon sequences
Seq C1 exon
GCCACTTTCCAAACAAAGCCATGCCTTCTGCAGGAACACTTCCTTGGGTTCAGGGGATTATCTGTAACGCCAATAACCCCTGTTTCCGTTATCCAACTCCTGGTGAGGCTCCGGGAGTTGTTGGAAACTTTAACAAGTCCAT
Seq A exon
GTAAGTACCGGATCAGGTTTTCTTTCCCAAACTTGTCAGTTAATACTTCTTCTTTCCTTTCTCAGACTCCGGGGAATTTTAAATGGTTGGGTTTGAGTGAAGGTGCTTTTGTGAAGGTTTATGTGATAAAGTCCAAAGAATGAGACCAGGGAGAATTGCTGCCAAAATTTAAAACATTGTAAGCTCATTTTGGTACATTTTTTATATAGCTGACAGTTCTGTGGTTGGGGGCCTTTCCTTAAAAAACTGGCAGGTTAGAGAGGTAGGGAGAGGGGAGGAGAGGGTGAGATGTAAGGAAAGAGTAACATGAAAACTTACATTACCATATATAAAATAGTTAGCCAATGGGAATTTGCTGTATGGCTCAGGAAACTCAAACAGGGACTCTGTATCAACCTGGAGGGGTAGGGTGGGGAGGGAGATGGGAGGGAGCTTCAAAAGGGAGGGGATATATGTATACTTATGGTTGATTCATGCTGAAGTTTGACAGAAAACAGCAAAATTCTGTAAAGCAATTATCCTTCAATAAAAAAAATAATTAAAGAAAAAGAAAAAAACCCCCAAAAACCTGGCAGGTAAGTAGAGAAGGGAGACACGCACATCAGCCTCATGCATTAATGAGCAAACACTTATTTAGCAAACGTTTATTGTGTGTGGGAGACCGCTGGTCCAGAAGTTGGGATATAGAGGTGTGTAGAGGATGTGGCCTGTCCTCAGGGAGCTCAGCCAAGGCTGGGGGAGCTTGGTCCTTTCTGCTCCCGGATCTCCTTTCTTCCTTCATGGGTGCCCTGTCACACTGCAGTGTCTGTCCTTCTGTCTACAGGTCTTTTTTGGCCCTGGGTGTAAGCTCCCTGAAGGGCATCTTTCATCACTTTTGTATTCCTGGCTCATGGTTTCAACAACAGACATAGGTAGGGCTGTGTAAGTGTTTGCCAAATGAGCCATTGAAGATTCTTGGAAGACACAGAAGCATGGCAGGAGTTAGAAAGGACTAAAGGCTGCAGGAGACGCAGCAGGACAGTTCTGAGGAGACTGAGCCAGGCAGGCAGGGCTCCATCACAGCATGCGTGGGCCTTAGGCTTCGAGACTTTCATGAGCCCCTTTTTCCGTGAAACAGCATTAAAAATTTTATTTTTTAACTGTGTTGGGTATAAAGATTAGTATATTCCGGACTAAATTAATGATATGCATTCATTCAGAAATTTTTTCCTGATTTTAAAAGAAATTTAAAAATGTTGTGGACCCCTAAGTGTATCCTGGGCCTTAGGCACTGTGTCTGCTGTGTTTCATGGATAAGTTGGTCCTGGGGGCCTGTGTGTGTGTGTGTGTGTGTTTGCACGCGCATGTGCATGTGAGGGAGCGCTTCCTGCAGAGGCAGCATGTGGACTGGGCCTTGAAGGCTGGTAAGATTTGGTTGTACGGATACATGAGGATGAGTGTTTGGGGCAGGGTGGGTGGGTGGATGGGTGGGTTGGAGCATAGCATCTCAGAGGCTGGGTGAGGGGGCAGCTGGAGTGGGTCAGGGGTGGCCTGCAGGGTCCCTGCAGCCAAGCTGGGTGTTCCTGGCAGATACTTTGTTCGAACTGGAGAGACAGCTGGTCTAACCAGGACGTTTCTGCTTTTCTTGCTCCCCCTGCAG
Seq C2 exon
TGTGTCTCGCCTGTTCTCAGACGCTCGGCGGCTTCTCTTGTACAGCCACAGAGACACCAGCATGAAGGACATACGCAAAGTTTTGAAGACGTTATACCAGATCGAGCGTTTCAGCTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020661:ENSBTAT00000027538:4
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACTTTCCAAACAAAGCCA
R:
GTGAGCTGAAACGCTCGATCT
Band lengths:
261-1900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]