HsaINT0138084 @ hg19
Intron Retention
Gene
ENSG00000146587 | RBAK
Description
RB-associated KRAB zinc finger [Source:HGNC Symbol;Acc:17680]
Coordinates
chr7:5096926-5097410:+
Coord C1 exon
chr7:5096926-5097052
Coord A exon
chr7:5097053-5097314
Coord C2 exon
chr7:5097315-5097410
Length
262 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
CCTTCTTTTCCCATTAACAGGAT
3' ss Score
11.2
Exon sequences
Seq C1 exon
GGGCCAGTGTCATTCAAAGATGTGGCTGTGGATTTCACCCAGGAGGAGTGGCAGCAGCTGGACCCTGATGAGAAGATAACTTACAGGGATGTGATGTTGGAGAACTATAGCCATCTAGTTTCTGTGG
Seq A exon
GTGAGAATAGCTTGCTTTCTGAATGCTCTCAGTTGAATGGGGTTTTATCCTTGAGTTTGAAGAAATAAGTGATGACACCATTTAATTCCTTGTGGGCACTAGCTGGAGTGTTTATATTATTATTCATTGAAAGGTTCTAACTTTGATAAGGTAAAAAATGGAGCACTTCTGTTATGCAGCTTATGAGGTGGCAACATCTTGTACTTCAGAGATTCTGAAGCCAAGCAGCTTCCCCAAGTCCTCCTTCTTTTCCCATTAACAG
Seq C2 exon
GATATGATACCACCAAGCCAAACGTCATCATTAAGTTGGAGCAGGGAGAGGAGCCGTGGATAATGGGAGGTGAATTTCCATGTCAACATAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146587-RBAK:NM_021163:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.147
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCAGTGTCATTCAAAGATG
R:
GGACTATGTTGACATGGAAATTCACC
Band lengths:
221-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)