HsaINT0143334 @ hg38
Intron Retention
Gene
ENSG00000124782 | RREB1
Description
ras responsive element binding protein 1 [Source:HGNC Symbol;Acc:HGNC:10449]
Coordinates
chr6:7187434-7189322:+
Coord C1 exon
chr6:7187434-7187523
Coord A exon
chr6:7187524-7189158
Coord C2 exon
chr6:7189159-7189322
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:ENST00000379938:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.402
Domain overlap (PFAM):
C1:
PF047109=Pellino=FE(28.7=100),PF138941=zf-C2H2_4=PU(87.5=70.0)
A:
NA
C2:
PF047109=Pellino=FE(53.5=100),PF138941=zf-C2H2_4=PD(4.2=1.8),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