BtaINT0011134 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61878438-61880570:+
Coord C1 exon
chr19:61878438-61878667
Coord A exon
chr19:61878668-61880428
Coord C2 exon
chr19:61880429-61880570
Length
1761 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
TGTCTTTGTTCCCCTTTTAGGCT
3' ss Score
11.92
Exon sequences
Seq C1 exon
ATGAAGACCAATGTTTCTTTTTGGAAAGAGCTGGAGTCAACTAAAGCTGTTCTTATGGGAGAAACGGCTGTTGTAGAAATAGACACCTTTCCCCGAGGAGTAATTTTAATATACCTAGTTATAGCATTTTCACCTTTTGGATACTTTTTGGCAATTCATATCGTAGCAGAAAAAGAGAAGAAGTTAAAAGAGTTTTTAAAGATAATGGGACTTCATGACACGGCCTTTTG
Seq A exon
GTATGTTAATAAAACTTTGTTATTTAGTGTGGTTAATAATTGCGAAAGTTCTACAAATCTTCAGTACTGCAGTTTTGTTACTCACTGGACTCGACGAGGTCCTGAACCTCTTTTCTTGCAGTTCCCACCTTTGTCATGGAGTTTGAGACTCATCACAAAGCTCCAGCAAATAATTATTTCCAGAGAAACAAATGAAAAAGTTCACCAATGAGCGCATTAACATTTTTGTACAATGATAATTTTATAGAGGCATGAAATTTTATAAACAATTCCAAGTATGTTTTCCATACTTTCCCCACTATGCGGTAAGAACATTTATTTTGACCTTACTTTGGGGGAAACATTCAGTTCAGTTCAGTCACTCAGTCGTCTCCGACTCTTTGCGACCCCATGAATTGCAGCACGCCAGGCCTCCCCGTCCATCACCAATGCCCAGAGACCATCCAAACCCATGTCCATTGAATTGGTGATGCCATCCAACCATGTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCTCAATCTTTCCCAGCATCGGGGTCTTTTCAAATGAGTCAGCTCTTCACATCAGGTGGCCAAAGTATTGGAGTTTCAGCTTCAACATCATTCCCTCCAATGAACACCCAGGACTGATCTCCTTTAGGATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGACTCTTCTCCAACACCACAGTTCAGAAGCATCAATTCTTCTGCGCTCAGCCTTCTTTATAGTCCAACTCTCACATCCATACATGACCACTGGAAAAACCATAGCCTTGACTAGACGGAGATGTTAGTACTATCAAATATGAGTTGTTATTATCAACCATTTTATTCCATTTAGCTCAATGCAGCAGCTGAACCGTATTACATATGGGGTTATCCCCATATGACATGTGACATCGTCTTTGCTCATTTCTTACTCTGGGGGTTTCACTAGTGGTCAGTCTCTGAGACACACTGGAATATTAAATGTTTTGTGAGGAGACAGTAGCTGGAAGAATTTAGGTAGATCAGTTTCTCAGTGCTTCATTTCTGCCTCTGTAAAATGCTAGATTTAATTTTGGTAGTTTAGGTATCTTTTGACCCTCTTTTGGTGGTTTTTATGATGCTGTGCAGTAAGTTACCTGCTAACTTGAAAAACAAAAGCAAAATAATAGACTGTGGGGCAGTCAGTCACTCAGGCTCAAATCCCCTGAGCTCTGATTTGAGGGAAAACGTTGAGTCCGTGTGATGAATCTGTTGTTGATCTTTGTCTCACGTTGAGTTCCATAGTAATAACGTTGTTGCTTAGCAAGGTGGCCTTTACAACTATCTAAAGTACCAAAAGCCGTTAGAGTTCAGTTGCCGTGTGTACCATAAAGAAAATCGTCAGTCATTAAACTCTTTTGTATTTTAAGAAAATCAGAATGTGCATTGTTGAACTTCTGAAAGTACTAGATTTAAATGAATTGTGATTTGCTATAAATCTGTAAGTTTTTTTTGACTCCTGGGAAGATAATCACCATTTTATCTCTATATGAGATGATAACTTGATAATTTTATCTACAGCTTAACCAGTACTATATTTTTCATTACATACAAGAGCTTTAATTTTCAGTACATGAGCATACATAGAAATGAAGTGATTGGCTTAAATTTAAGAATGAAACGGCTAAAATAAAGCTGAAGTTTTATTTAAAATGATTTTTTTTAATTATTAAGGCCCGTGTATTTAGCCATAACTGTGTCTTTGTTCCCCTTTTAG
Seq C2 exon
GCTTTCCTGGGTTCTTCTCTACACAAGTTTGATTTTTCTCATGTCCCTTCTCATGGCAGTCATCGCAACAGCGTCTTCCTTATTCCCTCAGAGTAGCTGCTTTGTGATATTTCTCCTTTTTTTCCTCTATGGCTTATCATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:5
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:
PF126982=ABC2_membrane_3=FE(19.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.1=100)
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:
TGAAGACCAATGTTTCTTTTTGGA
R:
AGGAGAAATATCACAAAGCAGCT
Band lengths:
346-2107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development