BtaINT0011127 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61875348-61876931:+
Coord C1 exon
chr19:61875348-61875509
Coord A exon
chr19:61875510-61876842
Coord C2 exon
chr19:61876843-61876931
Length
1333 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
CTCATGCGTTTCCTCTGTAGCTG
3' ss Score
9.06
Exon sequences
Seq C1 exon
TCGTAACTATTGAAGAATATGCAGATGAAAAAGAATTGGTAACATCTAGTCTTTCCAAGTCTGACACCTTTGTAGGCGTTGTGTTCAAAGACTTCATGTCCTACGAGCTCCGGTTTTTTCCTGATACGATTCCAGTATCTTCTGTTTATATGGATTCAAGAG
Seq A exon
GCAAGTAGCCCTAAATGGTCCATGAAAATCAATTAAATGCATGTCTTTATTGCTCTTAGTTCAAATGCAAATTTTGATGGAGTCCTACATTGGAATTTCCAACTATAATTATTCAGATCAGAAGACTGTCAACTCTAGCATGAGAACATGTGTGTATATCTGTGTATCCACAGCTACATATATAATATGAAGTATAATTTATACTGTGCTTCCCCAGTGGCTCAGTGGTTAAGAATCCACCTGCAGTTCCATTCCTGGATTGGAAAGAGCCTCTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGTCTGGATTATACCACGGACAGAGGAGCCTGGCAGACTATAGTCTATGGGGTTGCAAAGAGCCTCATACTACTTAAGTGACTTAGCAGTCATGCACGTGTAATTTATATTAAACAATTTTATCTTGAGTTATATGACTTTCTAAGTCTATGTTCTTTTCTCCACATAATTGTTTTTGTACATGGTATGGTACATATTTTAAAATCTCAAGTTCTTCCACCAATAAACTTTATTAATTCTATGTTTGAAACATGGAAAACAGCCTTCAATGCCTAAGCCTCTGAAAAAATAATTATCAACCAAAAACATTTATTGAAACAATGTTAAAGTCACTATATTAAGTTTTATATTTGTGACTTGATTCCAAAAAGCCTTCAGATAATTTTCCTTTTTTTCTGTGCTCTTCACTTGGACCTGCCTTTGCATCTGGAAAGCTTTTAAAGCTGATAATTCATTGTAAAATGACTTACCTTAAGCCAGAAAAGTGACTTGTTTTAAAAAACCTCATTGGAAAAGACCGTGATGCTGAGAAAGATTGAAGGCAAAAGGCGAAGGGGGCAGCAGAGCATGAGGTGGTTGGATGGCATCACAGACTCAAAGGACATGAGTTGAGCAAGCTCCAGGAGATAGTGGAGGACAGAGGAGCCTGGCATGCTGCTGTCCCTAGGGTTGCACAGGGTCAGACACGACTTAGCCCCTGAGCAGCAGCCACTGATTTATTTGCTTCCATTTGTGTGCATTTACTACTCAGGATCCTAAAACACGTAACTCTGATTTCAAACATTTCAAATAAACAGTAAGGGGTGTGATAGACTTTGTTTGCCTTTGGAGGGCAGTTGCTCTTTTCAGAGCTTTTCGTTGCTTCTGTCAGAGCTGGATCAGCTGTGTCGCTCTGGTTTCTGTCAGAGCTGGATCAGCTGTGTCGCTGTGGTTTCTGTCAGAGAGGGATCAGCTGTGTCGCTGTGGTGACCCACTGGGCGCTGCCTCCTTGTGCTGAGCCTTACCTCTCATGCGTTTCCTCTGTAG
Seq C2 exon
CTGGCTGTTCCCCATCGTGTGACGCCGTCCAGTTCTGGTCCTCAGGGTTCACAGTTCTGCAGGCCTCGATAGACGCAGCCATCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:3
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(14.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.5=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:
GAATATGCAGATGAAAAAGAATTGGT
R:
ATGATGGCTGCGTCTATCGAG
Band lengths:
233-1566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development