HsaALTD0000042-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000118777 | ABCG2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 [Source:HGNC Symbol;Acc:74]
Coordinates
chr4:89060945-89079823:-
Coord C1 exon
chr4:89079729-89079823
Coord A exon
chr4:89079538-89079728
Coord C2 exon
chr4:89060945-89061166
Length
191 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TATTGCTTTTCTGTCTGCAGAAA
3' ss Score
10.56
Exon sequences
Seq C1 exon
AAAAGGTTCCGGGCGCGCAGGAGGGAAGAGGCAGTGCCCGCCACTCCCACTGAGATTGAGAGACGCGGCAAGGAGGCAGCCTGTGGAGGAACTGG
Seq A exon
GTAGGATTTAGGAACGCACCGTGCACATGCTTGGTGGTCTTGTTAAGTGGAAACTGCTGCTTTAGAGTTTGTTTGGAAGGTCCGGGTGACTCATCCCAACATTTACATCCTTAATTGTTAAAGCGCTGCCTCCGAGCGCACGCATCCTGAGATCCTGAGCCTTTGGTTAAGACCGAGCTCTATTAAGCTGA
Seq C2 exon
AAAGATAAAAACTCTCCAGATGTCTTCCAGTAATGTCGAAGTTTTTATCCCAGTGTCACAAGGAAACACCAATGGCTTCCCCGCGACAGCTTCCAATGACCTGAAGGCATTTACTGAAGGAGCTGTGTTAAGTTTTCATAACATCTGCTATCGAGTAAAACTGAAGAGTGGCTTTCTACCTTGTCGAAAACCAGTTGAGAAAGAAATATTATCGAATATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118777-3-4,4-4-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.812 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(2.6=5.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACTCCCACTGAGATTGAG
R:
TCGACAAGGTAGAAAGCCACT
Band lengths:
243-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)