HsaINT0070575 @ hg19
Intron Retention
Gene
ENSG00000155265 | GOLGA7B
Description
golgin A7 family, member B [Source:HGNC Symbol;Acc:31668]
Coordinates
chr10:99623687-99624026:+
Coord C1 exon
chr10:99623687-99623839
Coord A exon
chr10:99623840-99623924
Coord C2 exon
chr10:99623925-99624026
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGCC
5' ss Score
3.58
3' ss Seq
TCTGGCTCCTCTTTTTGCAGGTT
3' ss Score
10.98
Exon sequences
Seq C1 exon
ATCGAGCGGCAGCTCTTTGAAGAGACTGTGAAGACCCTCAACGGATTTTACGCAGAGGCTGAGAAGATTGGGGGCAGCTCCTACCTCGAGGGCTGCCTGGCCTGCGCCACGGCCTACTTCATCTTCCTCTGCATGGAGACCCACTATGAGAAG
Seq A exon
GTGGCCCCTCCCGCCCCACCGTGCATCCCTTCCCTCAGGGCTGCCCTGTGGCATGCTCATCCTTGTCTGGCTCCTCTTTTTGCAG
Seq C2 exon
GTTCTCAAGAAGATTTCCCGCTACATCCAGGAGCAGAATGAGAAGATCTTTGCACCTCGAGGCCTCCTACTTACAGACCCTGTGGAGCGTGGGATGAGGGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155265-GOLGA7B:NM_001010917:3
Average complexity
IR-S
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:
PF102564=Erf4=FE(43.5=100)
A:
NA
C2:
PF102564=Erf4=FE(28.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGATTTTACGCAGAGGCTG
R:
GCCTCGAGGTGCAAAGATCTT
Band lengths:
176-261
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)