HsaINT0143334 @ hg19
Intron Retention
Gene
ENSG00000124782 | RREB1
Description
ras responsive element binding protein 1 [Source:HGNC Symbol;Acc:10449]
Coordinates
chr6:7187667-7189555:+
Coord C1 exon
chr6:7187667-7187756
Coord A exon
chr6:7187757-7189391
Coord C2 exon
chr6:7189392-7189555
Length
1635 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
GTGACCATTGCTTTCTGCAGCAC
3' ss Score
6.37
Exon sequences
Seq C1 exon
GAAACGAAAGAGGAGAAGTCTTCCTATAACTGCCCCCTGTGTGAGAAGATTTGCACTACCCAGCACCAGCTGACCATGCACATTCGCCAG
Seq A exon
GTAGATTCCCACTGTTCTTTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTAGTCAAGTGCAGTAATGAGAAGAGGGGGAAGAGTAGAACAAGGAGTTAAACACTCACTGTGAGCAATCAGTTGAGATAACTCAGTACCTTCGGACCAGCCTATTTTTGATCTAAATTATTCTTCCTTAAGCACAGGGCAGGGTAATTGGATTTTAATGGATGAGCTGTAGCTGTGCCTAATTTAAATTTAGTTTTTTAAATAATTTTGGGAGGTGGTTATGAAATGACTTTTGTATATGCATATTCCTGTGACAAAGTCTTAGGTCAACACAGAATTCCTTTTTGGCTGGGTGCAGTGGCTCATGCCTGTAACCACAACACTTTGGGAGGCCAAGATAGGCGGATCACTTGAGATCAGGATTTGGAGACCAGCCTGGCCAACATGGTCCAGACCAGCCTGGCCAACCCATCTCTACCAAAAATGCAAAAATTAGCCAGGCATGGTGGCATGCACCTGTAATCCCAGTTACTTGGGAGGCTGAGACAGGAGAATCACTTGAACCCGGGAGCAGAGGTTGCAGTGACCCAAGATTGCGCCACTGCACTGCAGCCTGGGTGACAGACCGGGACTCTGTCTCAAAATAAATAAATCTCAAAATAAATAAATAAAATAAAATAGAATCGCTCCCCCCCACACGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGCACGTGTGTGACGGAGTCTCGTTCTGTCGCCCAGGCTGGAGTACAGTGGTGCGATCTCAGCTCACTGCAACCTCTGCCTCCTGAGTTCACGTGATTCTCCTGCCTTAGCTTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCACGCCCAGCCAATTTTTTTATATTTTTAGTAGAGACGGGGTTTCAGCACGTTTATATTAGTATAAACGTACATAACACAGAAGGAAATCTACTCAGCTTGGGGTCTTTTTTTGCTTTTCTCCTTTATTATGAGATTTACCCTTCTTCTCCTGCTGTGGCCAATTCATGACAAAATATTGATGAGTGTAGAACAGTGAAGGATTGATGACCTAGTAAAATCATGACATAGTACTGAATTAACATCAAGTTACTAAAGTAACTCGGGTTTGAATAGAAATGTTCCTTTTTACCGTCTTTCAGAGGCCAAAACTCTACCCTGTGCAGGTTTCAGTTCTCTTTCTCTGACGGCAGGCCTGAGTCATCAAATCTGAAGAAGGGACGTTGACTCCTTTAATGGAAGGACATATTTCCTTCACTGTTGAGTGTCCTTCGGCTTGTAGGAGTTAATATATGTGGTCACTGAATCTGTATGTGGTTCAAAGCAAGACCTGGGAAGGCTCTACTTCTTTCTGAGCCTTTCAGTAGAAGTAGTTTTCAAAACAATGTGGGAATGGAGGAATATCATACAAAATATTTATTTGCCTGTTTTCCTGATACATTTTACCCCTTCAGAAAGATATTTAAAATGAAAGAGAAACACATAGCCAAGAAAGTTGATTGGTTTTTTTAATAAAGCTCTGGATCTGCATTTCCTAAGAGCTGAGCTTCTGATGCACTTTCTTAAGTGACCGCTGTGACCATTGCTTTCTGCAG
Seq C2 exon
CACAACACAGACACTGGAGGAGCCGACCACTCATGCAGCATCTGCGGAAAGTCACTGAGCTCGGCCAGCTCCCTCGATCGCCACATGCTGGTGCACTCTGGCGAGAGGCCTTACAAGTGCACTGTGTGTGGCCAGTCATTTACCACCAATGGGAACATGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124782-RREB1:NM_001168344:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.450 A=NA C2=0.418
Domain overlap (PFAM):
C1:
PF047109=Pellino=FE(28.2=100),PF138941=zf-C2H2_4=PU(87.5=70.0),PF127732=DZR=PU(0.1=0.0)
A:
NA
C2:
PF047109=Pellino=FE(52.4=100),PF138941=zf-C2H2_4=PD(4.2=1.8),PF127732=DZR=PD(96.4=96.4),PF134651=zf-H2C2_2=WD(100=47.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACGAAAGAGGAGAAGTCTTCCT
R:
CTGTGCATGTTCCCATTGGTG
Band lengths:
254-1889
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)