BtaINT0011116 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002747 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:HGNC:35]
Coordinates
chr19:61874388-61875509:+
Coord C1 exon
chr19:61874388-61874592
Coord A exon
chr19:61874593-61875347
Coord C2 exon
chr19:61875348-61875509
Length
755 bp
Sequences
Splice sites
5' ss Seq
ATGGTACTG
5' ss Score
4.16
3' ss Seq
TTTGTTTTGTTATTTTATAGTCG
3' ss Score
7.92
Exon sequences
Seq C1 exon
GAAATTCTTTTTCCACTGTTTTTTTTGTTTTGGTTAATATTAATTAGCATGATGCATCCAAATAAGAAATATGAAGAAGTGCCTGATGTAGAACTCAGTGCCCTGGACGCGTCCGTCCTCACCAACGTCGTGCTTGGATTCACGCCCGCGACTAACATCACGAGGAGCGTCATGCAGAAAGTGTCTGTGGATCACCTTCTTGATG
Seq A exon
GTACTGTGAGCTGGCGTGGGTCCTGTCCCTTACAGACAGCCTCTTTTGTGTTGTGCTGTTTGCTTTATTGAGTAAATACCGTTCTTAACCTTTAGGTATATATCCTTTAACCATACAGAGTTTTAAAAAAATGTTAACGTCATTTGATTCTACTGGCCTGTGTTTCTTGTGAAACTTTCATTTATAGTATACTCTATGTTTTAATATTTTATATCATGGGCCATTTATAAAGCAAGCATATTCGTATAGGATAAAATAAGCAATACTGGGTTTAAATGTCAATTTTTATTCAAAGAAGAGTTGTATCATAGTTACCAAAATATGTATTTTGTTTCTGAGAAGGATTGTGGAATTTTCTTCCTAAGAAGGAATATTTGAAAATAAAGTATCCATTCATTTATCAAGGAGTTATTTCATGGTTTCACTTGAGATAGGTAAATGAACTACATATATTACATGTAAAGTGTATGCTCTAATTTATCATGTTAATAGCTTATGTGTTACACTGACACATAACTTATGTATAGTCAAATGACAGATAAGAAAGAAATAGTGTCTGTAAAATTGCACAACTTTGATGTTTGTTACTTTTTAGTTTGGTTTTTAGAAGAGCTGTATTCATTATCTAAGAAGTTAGAGCATTCAACAAATGCTTATAAAATACTACATTCATCAAGTATAAAGGTAAATTTGGTCTGTTGTACTATAATAAACCATTCATGTATTTGAGCTAGTTTTGTTTTGTTATTTTATAG
Seq C2 exon
TCGTAACTATTGAAGAATATGCAGATGAAAAAGAATTGGTAACATCTAGTCTTTCCAAGTCTGACACCTTTGTAGGCGTTGTGTTCAAAGACTTCATGTCCTACGAGCTCCGGTTTTTTCCTGATACGATTCCAGTATCTTCTGTTTATATGGATTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002747:ENSBTAT00000003563:2
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(17.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.0=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:
GCATGATGCATCCAAATAAGAAATAT
R:
ACAGAAGATACTGGAATCGTATCAGG
Band lengths:
304-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development