BtaINT0011135 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61880429-61882602:+
Coord C1 exon
chr19:61880429-61880570
Coord A exon
chr19:61880571-61882413
Coord C2 exon
chr19:61882414-61882602
Length
1843 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
TTAACATTTGTATCTTATAGGTG
3' ss Score
10.56
Exon sequences
Seq C1 exon
GCTTTCCTGGGTTCTTCTCTACACAAGTTTGATTTTTCTCATGTCCCTTCTCATGGCAGTCATCGCAACAGCGTCTTCCTTATTCCCTCAGAGTAGCTGCTTTGTGATATTTCTCCTTTTTTTCCTCTATGGCTTATCATCC
Seq A exon
GTAAGTACTTTCACTTGAAATGGGAATAAAGAACTGTCAAAATATTTGATTAATACAGTAAAGTCTTATGTTTTGGTTTACTTCCAGTCGACTTCCCACGAAAGACAGGATTGTTCCTCGGTTAATTCTGATGAATGAGCTGTATCATTGTACCTCCTCATTTTTAGGAAAGTTACAAAATATTCTCAAGTTTAAATTTAACTAGTTTTCATATGATGTATTCCACACATATTTCCTCTGAGTCTGTCTTTTATGATCTTCATATAACTGGGTTTATACATCATTAAGATGGTCTTGTGGAGCAGATGGCACCCCACTCCAGTACTTTTGCCTAGAAAATCCCATGGACGGAGGAGCCTGGTAGGCTGCAGTTCATGGGGTCGCTAGAGTCGGACACGACTGAGCGACTTCACTTTCACTTTTCACATTTATGCCTTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACAGGAAGCCTGGTTGGCTGCTGTCTGTGGCTAGCACAGTCAGACACGACTGAAGCGACGAAGCAGCAGCAAGATGGTCTTATACTAGACTCTATTTTTGTTTTCGTGAAATCCTAAACGTTTCAAGGTAATATGTGTTACAGGATGATGCTGTGTAAAGATACGTCTTTGTAAATTTAATTCTTTGACAGTGCTGGTACGGGCCGGGTATTTGGCTAAATGCTAGTTGTGCACCACCAGGCGCTGCTTGCTTTCTTTAAGGATGTATCTGGCTGCACTGGGTCTTAATTGCAGCCTGTGGGGTCTAGTTCCCTGACCAGGGATCCAACCTGGGCCCCCTGCGTGGGGAGCATGGAGTCTTAGCCACTGGACCACCAGAGAAGCCCCCAGCCTTTGTTTTCCGTGGTCCTAGTTTCCATTCTGATTGGCTCACGTCCCATGCTGTATCAGTTGTGAAATATTTTGATTATCATCTCTGCTCTTTAACATGATAATTTATAAATAACATGTATGTGAAAGTGAATGTTGCTCAGTTGTGTCTGACTCTTTGCTACCCCATGGACTATACAGTCTGTGGAATTCTCCAGGCCAGAATACTAGAGTGGGTAGCCTTTCCCTTCTCCAGGGGATCTTCCCAATCCAGGGATTGAACCCAGGTCTACCGCATTGTGGGTGGATTCTTTACCAGCTGAGCCAGCATGGAAGCCTGCCTCAAATAACGTGTATGCTTCTCTATATAGTTGCCTGGTTGTTAACTGCCTCTGTTTCTTATCAACACATTAAAAGCTGGGTCCTCTATTTGAAAGCTTGCTGAGTTGTTTTGTTCGTATTTGAACATGTCTAACTGCAGAGATGCCTGATAGTTTTTGGTTTCTGTGGAATTGAGATGGTCATGTTTGCCTATTACATAGAATAAGAGCAGTTTTAAATATTTGTCAGTTTATATTGTTAATGTATAGCACTATTTGTATGAAAAGTAAATATCTCAGCATGACCTTTAGAAATTTGTTGTTCTTTAGTTGCTAAGACGTGTGTGTCCAACTCCTTGGGACCCCGTGGACTATAGCTCACCAGGCTCCTTTGTCCTTGATATTTCCCGAGCAGGGATGCTGGAATGGGTGGCCACTTCCTCCTCCAGGGATCTTCCCAACCCAGAGATCAAACCCGTGTCTCCTGCATTGGCAGACAGATTCTTTACCACTGAGCCACCAAGGAATTAATTAGAAATTAATTGAATTTTAGTGAATGTAGTTTCTAATGAAAATAGCTTGTATTTTCACAAGCAAAAATTTAATCTTGTTTTTACATCAGTGTATATGAACAATGCATTAACATTAACATTTGTATCTTATAG
Seq C2 exon
GTGTTTTTTGCTTTAATGCTGACGCCTCTTTTTAAAAAATCAAAGCATGTGGGAATAGTTGAATTTTTAGTCACCGTGGCTTTTGGATTTGTTGGCCTCTTGATAGTCCTCATGGAAAGTTTCCCCCCATCGTTAGTGTGGCTCCTCAGTCCCTTCTGTCAGTGCACTTTCCTGATTGGCATCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:6
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(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(16.0=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:
GCTTTCCTGGGTTCTTCTCTACA
R:
TGTGCGATGCCAATCAGGAAA
Band lengths:
330-2173
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development