BtaINT0011119 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61908721-61910414:+
Coord C1 exon
chr19:61908721-61908834
Coord A exon
chr19:61908835-61910243
Coord C2 exon
chr19:61910244-61910414
Length
1409 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TTTTCCTTTTTTTTTTTTAGATC
3' ss Score
13.09
Exon sequences
Seq C1 exon
GAAATCACAGACATCGTTTTCAAAATCGAGCTGTACTTCCAAGCAGCTTTACTTGGGGTTATTGTTACCGCAATGCCTCCTTACTTCGCCATGGAAAATGCAGAGAATCACAAG
Seq A exon
GTAATGACTCAGTTAAAAATCACAGGTGCAATTGACTGCTAAGAATTCTCAGACCAAAAAAAAAAAAAAAAAGAATTCTCAGACAAGAAACTGAGCTTTTCTGTGTGAGTGCAAGACTTATGTGCAGCTGTTATTTTGAGAGTAAGTAAATGGAGCATAAATACGTTTATCACAGTGAGAGTAACAACTGTCACTTACTGTTTGCGTGCTTGTCGTGCACTTTAAAAGTGTTCCGGGGTGCGGATCTGCACTGTTTCAGCTCTGACTGTTATGAATTAAGCTGCTCTGGACGTTTGCTGCAGGTTCCTGGGTGGACGTGTTTTCTTTTCTCTGGCGTGAACGCCTGTGAGCACACTTGCGTGTCACATGGTGATTGCACGTTTAGTTCTATAAGACATCGTTGATCTGTTTTTCAGGGTGGATAAAAGCCTCTTACACTCCCACCAGCAGCATATGAGGGACATGAATTTTCAAAAAATGATTGTATTTGACGTGCTTTATGTTTTTATATGTATATTGGAATTAATATTTTTGTCCTTGTGTTCATTGAACACTAATATTGTCCACTTATAAAATCATTTCTTCTTCTTAACTAATATTTATAGCCCAGAAAATCATTTCTTCTTCTTAACGAATGTTTATATCCCTCTTTCGTCCTCTGTGGCCAGCTCTTTCCTATCAGACATTGAATTACTAGGAGTAGATTTTTTTTATTATGAGTAGATGTTTTTATAGATGACAAAAATCACCTGAACAGGGTTGTTAGGTATTTGCATTTATGGAAGATCTTAAAATTTCAAAATTATGTAGTGAGAATGTTAGGAAAACAATGATTGTTTACACTGTCAGCTGTTCACACAGGTGAAAATGGTGTTCCCTCGTGGTAATAATCACAGTTGACACTCATGTTCTACACACGAACGCGTAAGAGGTTTCAGATGCGTCCAAGTACAAGTTTCACACTTAAGCTGAAAGCTGTGTGTAAGTCTGATGATACTTGGCCATTTATTAGTGTTTTCATGAAAGGTCAATGTTTAAAAGTAAGCATTGTGTTTCCTAAACATGCTTTTTCTGTTTCACAGAATTTCAGAAGTCTCATTTCGGCAGCTCGCTGTTTGCGCCACTGTGACTCCCACGGCCCTTTTATTTTATTTTAGCTTCGTTTCTTAGCGGCACTGCTGCGTTCTGATGCTGAAAAATGCTGCTGAGACTGTTATGCCTCAGAAACAATGAACCAGATTAAAGGCTAAATGGAATTTATATTTAGCTGTCAGAGGGCTTTTATTACCTACTGATGCAATGTGACCCTTCTTGTTGATGTAAAATTAGGAGTTCTGCAATCATTTGCTAGAGATTTTTGTTTGTAGTATGTTTCAAATTATAATCAATTTTTCCTTTTTTTTTTTTAG
Seq C2 exon
ATCAAAGCTTATACTCAGCTTAAGCTCTCAGGTCTCCTGCCTTCTGCATATTGGCTCGGACAGGCTATTGTTGACATCCCCTTATTTTTTGTGGTCCTTACTTTGATGATAGCCAGTTTGTTTGCATTTCATTATGGATTATATTTTTATGCTGTCAAGTTCCTTTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:22
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(10.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATCACAGACATCGTTTTCAAAA
R:
AATCCATAATGAAATGCAAACAAACT
Band lengths:
254-1663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development