HsaINT0143332 @ hg19
Intron Retention
Gene
ENSG00000124782 | RREB1
Description
ras responsive element binding protein 1 [Source:HGNC Symbol;Acc:10449]
Coordinates
chr6:7181357-7182315:+
Coord C1 exon
chr6:7181357-7181479
Coord A exon
chr6:7181480-7182102
Coord C2 exon
chr6:7182103-7182315
Length
623 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATC
5' ss Score
7.05
3' ss Seq
CAGCAATTTCCAATTTTCAGTTT
3' ss Score
4.53
Exon sequences
Seq C1 exon
TGTCAACGAGTACTACCAAGAGAAGAAGACAAGAGGTCAACACAGACTCATTTTCTACTCCGTGTGAATGATAGCTACAGCAGGGGAAAGTTTCATAGTCTATCAGTGGGTCAGAAAATGGAG
Seq A exon
GTAATCAGCAGTGTGGCGGGAGGGTTCTTCTTTCCCTCCTAGGGTACGTTACCTGCTTTATACATATTTTTTAAGAAACAGGCTTTGATATGTCAATTTGAAATTTGTTTGTAACTCTGATAGCGTTGGCTTCTTAAATCTCTTATAAAATTCAGGCTCCCCATCAGAATCACTGTATTGCAGCAGTGGAGTTAAATGAAACCTGATGTTTCTCATCACTAGTTTTAGGTCTGGAACATTTGTGTAGTAGTGAATAAGCCTAGGTTCTTAGGAGGGTGCTGCAGGGCGGCAGCTTTCTGGGCTTTGTCATTGTTGGCTTGGCCTTTCCCACTCTGCCTAACCCAGATTAGGAAAGGTAGAGAAACCTGCCTCTCATGAGTTTGAGTCCTGTTGGTAGTGCACACTCAGAAAGGAGGCAAGGTTACTTCGTCCTTGGTATGCCAAGACTTGGTTTAAATGAAAGCTTCCATCACTCTGGGCGTGAATGTGGCCTTTAACTGGAGAAAGACAGCGTTGGATGTTTTTGACCTGAATTACAATTAGAGTAGCCATGGCCAGCGCCCCCTGGCAATGACAGAAGCCTAAACTTCCCCATGATCACATCAGCAATTTCCAATTTTCAG
Seq C2 exon
TTTTATAGCAGAGGCTTCTTAGAAGCTTAAACCCCTGTCCCAATGACGTCAAGTTCGCCCGCTGGCTTGGAAGGTTCAGACCTATCTTCCATCAACACCATGATGTCGGCGGTCATGAGTGTAGGGAAGGTCACAGAGAATGGCGGGAGCCCCCAGGGGATCAAGTCCCCCTCGAAGCCTCCAGGACCAAATCGGATTGGCAGAAGGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124782-RREB1:NM_001168344:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF047109=Pellino=PU(11.1=17.5)
Main Inclusion Isoform:
NA
Main Skipping 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:
TGTCAACGAGTACTACCAAGAGA
R:
CTGGTTCCTTCTGCCAATCCG
Band lengths:
336-959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)