DreALTA0003563-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6187519-6193819:+
Coord C1 exon
chr14:6187519-6187634
Coord A exon
chr14:6193675-6193728
Coord C2 exon
chr14:6193729-6193819
Length
54 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TTCATCTCGTCTCTCCTCAGATG
3' ss Score
11.42
Exon sequences
Seq C1 exon
TGCAATTATGTTGTTCCTGCCACTCTGGTGATCCTGATCTTTGTGTGCTTTCAACAAAAAGCCTACGTTTCCGCCACCAACCTGCCTGTTCTTGCCCTGCTTCTGCTTCTATATGG
Seq A exon
ATGGTCCATCACTCCTCTTATGTACCCAGCATCCTTCCTCTTTAAAATCCCCAG
Seq C2 exon
CACTGCTTATGTGGTTCTCACAAGCGTCAACATCCTCATTGGGATCAATGGCAGCATTTCAACATTTGTCATGGAGTTATTCGGAAATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009-42-46,42-45-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(11.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCACTCTGGTGATCCTGAT
R:
CCCAATGAGGATGTTGACGCT
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]