BtaINT0010999 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047254 | ABCA2
Description
ATP-binding cassette, sub-family A (ABC1), member 2 [Source:HGNC Symbol;Acc:HGNC:32]
Coordinates
chr11:106215419-106215849:+
Coord C1 exon
chr11:106215419-106215569
Coord A exon
chr11:106215570-106215644
Coord C2 exon
chr11:106215645-106215849
Length
75 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
TGACACTGCTGTCTCCTCAGTCC
3' ss Score
7.45
Exon sequences
Seq C1 exon
CTTCTTGGTGTCCGTGCTGTACTCCAAGGCCAAGCTGGCCTCGGCCTGCGGCGGAATCATCTACTTCCTGAGCTATGTGCCCTACATGTACGTGGCTATCCGTGAGGAAGTGGCCCACGACAAGATCACCGCCTTCGAGAAGTGCATCGCG
Seq A exon
GTGAGGGTCATGGGGGTGGCCCAGGCTTGGGGGTGTCCGGCCTCCTTTCCTGCACTGACACTGCTGTCTCCTCAG
Seq C2 exon
TCCCTGATGTCCACGACAGCTTTTGGCCTGGGTTCCAAGTACTTTGCTCTGTACGAGGTGGCAGGCGTGGGCATCCAGTGGCACACATTCAGCCAGTCTCCTGTGGAAGGGGATGACTTCAACCTGCTCTTGGCTGTCACCATGCTGATGGTAGATGCGGTCGTCTATGGGGTGCTCACGTGGTACATTGAGGCTGTGCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047254:ENSBTAT00000065373:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(22.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(26.5=88.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTACTCCAAGGCCAAGCTG
R:
ACTTGGAACCCAGGCCAAAAG
Band lengths:
175-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development