HsaINT0172104 @ hg38
Intron Retention
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42256728-42257102:-
Coord C1 exon
chr6:42256963-42257102
Coord A exon
chr6:42256832-42256962
Coord C2 exon
chr6:42256728-42256831
Length
131 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTG
5' ss Score
7.44
3' ss Seq
CTTCTCCTTATTCCCAACAGTGG
3' ss Score
8.47
Exon sequences
Seq C1 exon
ACGCATCAACATTGGCTTGAGATTCCAAGCAGAAATCCCTGAACTCCAAGATATCTCTGCCCTGGCCCAGGACACACACAAGGCCACACTGGTATGGAAGCCCTGGCCAGAACTAGAAAACCATGACCTCCAGCAAAGAG
Seq A exon
GTATTGGCATATGGGAAGAGCTGGGTGGGAGAGGTTTGATTCTCTCACTGAGATCACTGGCTCTGGGATTGGTGTGTTTTCCATTACACTCAGCTCTCTCTGATGCATTGGCTTCTCCTTATTCCCAACAG
Seq C2 exon
TGGAGAATCTTCTGAATTTGTGCTGTTCCAGTGCATTGCCAGGTGGAGGGACCAATTCTGAATTTGCTTTGCACTCTCTGTTTGAGGCCAAAGGTGATGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496:ENST00000372922:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(78.9=93.8)
A:
NA
C2:
PF0144819=ELM2=PD(19.3=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCATCAACATTGGCTTGAGA
R:
CATCACATCACCTTTGGCCTCA
Band lengths:
244-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains