HsaINT0172116 @ hg38
Intron Retention
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42263320-42264854:-
Coord C1 exon
chr6:42264704-42264854
Coord A exon
chr6:42263569-42264703
Coord C2 exon
chr6:42263320-42263568
Length
1135 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
AGCCTTTATTGTCTGTGTAGGAG
3' ss Score
6.4
Exon sequences
Seq C1 exon
TGGCCAACCCAAAGGAGCGTTTGGGGAGCAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAGAACCTGCCTGCCCTGAATGGCCACATGCGGTCCCACGGGGGAATGAGGGCCTCCCCCAACCTCAAACAG
Seq A exon
GTTAGCAGGAGCCAGTTCCCGGTCCTTTCTAGGTCGTGTGCTGCTTGCTTTGCTTTGCTGCCGTCAGACAGAGAGTGATGTGAGCCCCATGCGGGACCTGGCGAGGCACAGTCCTCCCTTGACAGGAATGCTTAGGCTTTGGCGCTGGGAGCCAGCCAGGTCAAGCAGCCCCACTTCCCCAGCTTTATGATGAGCAAGGGTCAAAATCAGAGGCGCTAGAAAGCCTTTTAGGGCATCCCAGCTTCTCTCTCTGCCTCCTGGAGAAGACAGCAAAGGAAAACATGTAAATGCAATATTATTTTTAAACTTCTGCTGCTTGACACACCCAAGACCAGGCCCACTGGGGCCTTCCAGATTAGTGGTCAATTGCCAGAGAAAGCTAATATAATCATCAGGCTCTCAGCCAGAATTTTCTATTTACTGATGCAGTGGTGTTCAGCTCAACATCCAAAGATCCTTAAATACCCTCTGGATTATCCAGGTAGGATATCCAGATAGTAAACTATCCACAAATTTTAGAGTTAGATTAAAATCAAAAAATTTTCTCAGAATTATTTTAATATTGTTACTCTTAATTTAAATCTATGGGATTAAATCTCTGTTGAACAGAATTTTTGATTACCCAGATCACTCCATCTCCTGGCCATGCCAGATTATGTTTTTTAAAAAAGCTTTTGTCTTTACTTGTTAAAAGTACATGTTTTGTATCTCCAGTGTGGTTTCCTGACCTGAATAAAATTTAGGATGGAATGCCTATTTCCATTTGACAAATGAGTGAACTAAGGCCCATAGAATTAAAAACTCCTACACAAGATCGTACCTTCTTTTGGACTGATTACAAGTCCGTGTCCCTTTCTTTAAAAGCATGACAACCACACAATTTTTTTAAAATAGTTTAATACACAAGTAATGCATGGTCAAGAATTTTTAACTGTAAAAAATGGAGTCCAGCCTCTTCCACCATCAGCTGGCATCACTCCAGCCAAGGGACTCAGGATTGCAGGAAGGAAATCGCCCTGCAGCGGTTCTCTATCACCCATACCTGATGTCCTGGAACCTTTCGGGAAAAGCAAAGTGCATCCCCCTTGTGAGAGCTGCTCTCAGCCCAGGATCAAAGCCTTTATTGTCTGTGTAG
Seq C2 exon
GAGGAAGGAGAGAAGGTCCTGCCGCCTCAGCCCCAGCCACCACTGCCGCCTCCGCCTCCGCCTCCGCCGCCACCACAGCTCCCTCCCGAGGCAGAAAGCCTCACGCCTATGGTCATGCCCGTGTCTGTCCCTGTCAAGCTTCTCCCGCCCAAGCCCAGCTCTCAGGGGTTCACCAACAGCACCGTTGCCGCCCCCTCCGCCAGAGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCTGTGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496:ENST00000372922:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.662 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=47.1)
A:
NA
C2:
NO
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:
AAGCTGACATGCTCCATCTGC
R:
ATCTCGTCGTCCGACATCGAG
Band lengths:
344-1479
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains