HsaINT0001576 @ hg19
Intron Retention
Gene
ENSG00000118777 | ABCG2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 [Source:HGNC Symbol;Acc:74]
Coordinates
chr4:89052213-89053069:-
Coord C1 exon
chr4:89052955-89053069
Coord A exon
chr4:89052366-89052954
Coord C2 exon
chr4:89052213-89052365
Length
589 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AAAATGCTATTTGCCTTAAGGAT
3' ss Score
4.72
Exon sequences
Seq C1 exon
GTTATTAGATGTCTTAGCTGCAAGGAAAGATCCAAGTGGATTATCTGGAGATGTTCTGATAAATGGAGCACCGCGACCTGCCAATTTCAAATGTAATTCAGGTTACGTGGTACAA
Seq A exon
GTAAGTATTAGTGGGTTTGCATTTTCTGTTTCCTCTGTTTCTATATGGGTAAGTGCTTTGGCTGATAGTTCAATGTGCTTCCAGTTGATTATGTGACATGGTCCTAGAACTGACGTTCTTTACAGCAGCTTTTCTTAATTTCTCATAGACACTTATGTGAAAAGGCAGGGAGAATCTGGAATATGGCCCTTGTAAGGACAGTGATACCAATTCTAGTTTTTGTATCATTTCTAAAATGATACATACTACTGTTATCCTTTTTTGCCTTTCCTTCACCTTTCTTTTCCCCTAGCTTAGAAAGATATTTTGGCAAATCCTTGTATGAAGCAGTTTGGAAATGTCTGCTGGTAGTTAACATAATTACTTGCATTCTATTTGGGTGTACAGATAGGGGGTGAAAAATGATTATAGCAGGCTTTGCAGACATCTATGGAGTTAACTGTCATTTGCAGAACTGCAGGTTCATCATTAGCTAGAACTTTACCTTAGTTATGTTATCTTTGTGGATTATGTTATGTATACTAAACAGTCATGGTCTTAGAAAAGACTCATTATCATTATGTCTCATTAAAATGCTATTTGCCTTAAG
Seq C2 exon
GATGATGTTGTGATGGGCACTCTGACGGTGAGAGAAAACTTACAGTTCTCAGCAGCTCTTCGGCTTGCAACAACTATGACGAATCATGAAAAAAACGAACGGATTAACAGGGTCATTCAAGAGTTAGGTCTGGATAAAGTGGCAGACTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118777-ABCG2:NM_004827:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(25.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(33.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATGTCTTAGCTGCAAGGAAAGA
R:
CTTGGAGTCTGCCACTTTATCCA
Band lengths:
262-851
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)