BtaINT0011109 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61894169-61895455:+
Coord C1 exon
chr19:61894169-61894288
Coord A exon
chr19:61894289-61895316
Coord C2 exon
chr19:61895317-61895455
Length
1028 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCCACCCCTTTGCACGCAGGTG
3' ss Score
8.44
Exon sequences
Seq C1 exon
GTGCAGAGGGTCTTACTGGATTTAGACATGCAGGCTGTCAAAGATAATCAGGCTAAAAAGTTAAGTGGTGGCCAGAAAAGAAAACTGTCTTTAGGAATCGCTGTTCTCGGGAACCCAAAG
Seq A exon
GTGAGCAGATAATAGTGTTGCCGATGAGATAGTTTTAAATTAATCTGAATAAAAAAGCAAGTTGTAGAAATATATACATAGATACAGTATATGAAACATACATAAAATACTATACAGTATTATGGATGTAATTATAATAATAAAGTTTTAAAACTGAAGTCAGAAAGATACACAACCTCTTGAAGACAGCAGTCATCTCTCAGAAGGAGAAGGGGTCAGATGGACTTCACTTGTGTCTGCAGGGTTTTATTTCTCTGAAAAAAGATCTGAAGTAAACTAACATTTGTTACATTTCAGTGGTGGCTGTAGAAGTACTGTTCTGTTACTCTCTGCAGTTTTCTGTACGTTTGTTACGGTTACAGTAATAATCTAATAATAAGGACAGAATTGAAGGACTCGTCCACTGTTCTGTTGACCTGCTTCTGCTCGTGTCTGTTCCGTGCTGTTCTCTGTCCTGTAGAAGCTGGGCTGGGCCCTGGGTCAGAAGGCTTCCAGGTGCCCGCCTGCAGCCAGGGGCCCCGGGGTCCCCCACCCTGCCCCGTTTAGCCCGCTGCTGTGGCTGGGGGGGACCCGGGGTCCTGGCTTATGGCAGTCCCTCCTCCTCCATGTTTCTGAAATGAAAAATAGTCTTAAACTGCTTTCCTTGAGCTAATATAGAACATAATTCTCTAACGAGCAGTTGTTACATCTACAGAATTTAACTGTTTAGCCAAAAGCGATACAGTCAACGTTGTTTCTCAGTTTATTTTTCAGTGTTTTGTTTCTCAGTTTATTTATCTGGTTGTTGTTATACTTACAACTTACATATTACAGACACTAGTCTTTTAAAATTAAGACCAAGAAAGGATTCACATGCCAAACTGATGACTTTTTAAATTGATGCTAACTCAACGTATGAGTGAAAAACTCAGATCTAATACATTTTAATACAGTAACTTTAAATGGGGAGGCTTTTCAGGGTCCACATAGATTTTATATACTTTCATTTTCCTGAGGCTTCCTGCCCTCCCCCACCCCTTTGCACGCAG
Seq C2 exon
GTGCTGCTGTTGGACGAGCCAACAGCTGGAATGGACCCGTGTTCTCGTCACATTGTCTGGAATCTTCTGAAACACAGAAAAGCGAACCGGGTGACAGTGTTTAGCACTCACTTCATGGATGAAGCCGACATTCTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:13
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:
PF0000522=ABC_tran=FE(26.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(5.4=17.0)
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:
GTGCAGAGGGTCTTACTGGAT
R:
GCAAGAATGTCGGCTTCATCC
Band lengths:
257-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development