HsaINT0172109 @ hg38
Intron Retention
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42232681-42236411:-
Coord C1 exon
chr6:42236205-42236411
Coord A exon
chr6:42232893-42236204
Coord C2 exon
chr6:42232681-42232892
Length
3312 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TCACTCCCTTTCTTCCCCAGGTG
3' ss Score
13.12
Exon sequences
Seq C1 exon
ACAAGTGAAGAAGAAGAAGAGTTAGAGGAGGAGGAGGAGGAGGACCCGGAAGAAGATAGGAAATCCACAAAAGAAGAAGAGAGTGAGGTGCCGAAGTCCCCGGAGCCACCACCCGTCCCCGTCCTGGCTCCCACGGAGGGGCCGCCCCTGCAGGCCCTGGGCCAGCCCTCAGGCTCCTTCATCTGTGAAATGCCCAACTGTGGGGCT
Seq A exon
GTAAGTGTGTCTGTGTCGTCTGGGGATCTGGGACAAGTGAGAGCCATATAGCTGTGCCTGGCTTTAAGAGATGATGTATTTTCGAGAGTGCTCTTCCAACAGTCACAGTTTGGCAGAGGGTGCTCCATGTTGCCATTGTTTTCTGCTTCATTTGGCCAACAGGTATTTACAGAGTGTGTGTTCTGTGTCAAGCATGATGCTGCGTGTTGGAGAACACAGAGAAGGCCCCCATGCCCAGGAGTGTGTGATTCCAAGCTCTGCAGTGAGCGTGGCCTCCAAAACATACATTCCACATTTCCTGGAGCCTCTGCATTCCCCTGGGCTGTGTGTCACACAAGCTTGTGCCCTGTCAACATGCATTTAAATGTACTAGGAGAGCCTGCTGACAAAGATCATCCTTTTATGACATAATTACTTGCCCTACCTCCTGCAATTTTACCTATTTAGAAGGTTTTGCATTTCACATTTCATAAAGTGTTACTAATCGAAATGTCACTAATTTAAAATTGAGAACACTGTTACAAAGATTTAACTAAAGTTTATCTTTGTACTCTATGGTGGAGAAAAAAAAGATTTACTAAAAGTAAATTAATCATATAAACAGGCTGAAAGGGAGTGTGTGTAAATACAGAGGCTACTACTTTTCAAGAATATTAGAAGCATAATTTAGCTAAAATAAAACAAGTTCACCATGTGGTCATTCTTAGCACTAAAGAAAGACCTTACGGTATCTGTGCTGGCCTTGTCTAAGGCTCCATATGTATTTTAAAGGATATTTTTAAAGGTTATTTCTCAATCTCCCGCTGGTCTGCCACTAGTCTGAATTGGTGAGCTTTTCCCAAATCAGGTTTCTTAAGGCCAGGCACACCTGTATAGGCAAGTTCTAGAGGGATTACCCCTCAAAATAATGTTGCCCCTTGCAGAGGAAGCCCATTTTCCTTAAGTCAGTGTGCTTGTCTTTGCTCATACATGATATAGGACAGTGCTGTTCTCCAGAGTGTACTGAATGCTGCTTACCTGTCACTTAGATGGAGAAAGCAACAGTCTTTAAAATATTTAGATCCTAAAGCAGAAATTCATTTGATTTGCATTTAAGAAAAAATGAAAATTAAAAAAAAAACAAAAAAGATACATACATTTTGCATTCACTTTGAAGAGAACAGAAGAGATTGCTGGCTTGTTTTCCATCTTTGATGTTTAATGACCTGGCCATTTTGTATAGAGTGTTCACTGCAGCATGATTGCGATAATGACTTTAAGTGATGGTATTTCTTGGTGAATTTGTTCAGAAATTAGATGCCTCCTCAAATCATAGCTCTATGTACAATAAGTTGTGTACCAAATGGAAGTTATCTTTTACTTTTTCCCATCAAATGCTCAGCAAGTTAGATATTTTTCTGTTCCAATTTTTCTGTACATAAGGGAAAAGATATTTTTTAATGACTTTTAAAAATCACAGTGGAAAAAGCGTGCTGGTTTTATTTTATTCCTTGCCTAACGATGGAGGCTTTGGTTGCTAAGTCAGCGATAGGTTTTTTCCTATGTAAGAAAATAACCAGAGCTTGGCCAGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACAAGGTCAAGAGATCAAGACCATCCTGGCCAACATGGTGAAACCCCGTCTCTACTATACTAAAAATACAAAACTTACCTGGGCGTGGTGGTGCGCGCCTGTAGTCCCAGCTACTTGGGAGGCTAAGGCAGGAGAATCGCTTAAACCCAGGAGGCAGAGGTTGCGGTAAACTGAGATCATGCCACTGCACTCCAGCCTGGTGACAGAGTGAGACTCCATCTGAAAAAAAAAAAACAAGCAAACAAACAAACAAAAAAAACAGAGATCATAAACTTAATACAGCAACTACTACAGCTAGACAGCCCAGTAGGTACTCCCCTTAGCTGATGAGTTTAACAAGCTGGAAGCCAGGACTCATTGGATTCAGGGATATGGATTTACACCCCTTTATAGCGGTGGTTCTGAACTGGGGATGATTTATTCCCCAAGAACATTTGGCAGTGTCTGGAATTTATCATAACTTTTATCATAAATGCGGAGGTGCTGCTAGCATCTGGTAGGGCCAGAGATGCTGCTAAACATCCTATACAACAGAGCCCCCCACCCATCACAACAAAGAATTATCCAGCCCAAAATGATAGTAGTGCTGATGTTAAGAAAACCCAGCTTTATGGCAGGATTTTAAAATTCTGCCAAGATCCTTCTTCTTTTTATCATCTGTATTAAAATTTGGGGGTCTTAAACATTGCTTCAACAATGGGCTACTGATTAAGGCTATCTACAACGTAGAATACGTCAGAAAACCTAATCACTGTCTTTCAAACTGGATTCCTTAGGGTGCTAGGGCTTCCTCGGGGTAGATAGAGCTGAGCAAACAGGCGCAATTCTGGGGCACTGTCTCCATTCTAGCCAGAGCACCTCTGCTTTTAACTTGAGCCTGAGTTTTTTTAGTAAGACCTGATTTCCTAAAAAGGAAGGAGGGAGGGAAAGAGGAAGGAAGGAAGAAAAATGGGAGGAAAAGAAGGAGGTAGTTATCATCTTTAAAAAAGTTTGAGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCAGATCACAAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCTGTCTCTACTAAAACTACAAAAAATTAGCCAGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGTGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCTGAGACCGCACCACCACACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAGTTTGAAAGCTGGTCCAGCCCTCTCATTCCTCAGATGGAAAAAAATAAAGTATACAGAAGGGAAATGGCCCAACAGCTTTAGTTATAGTAGAGCTGGGTCCAAACCCCTGACGTCTTGACTTCTAGACAGTAGCTTTATTCTTTATCCTGTGCCACGTCGCTTCTTCTCTTCTGATTGTAGCAGTGATGAGGTTTTGATTGGCACAGGATCTGTGGTTGTGGTATTTGATCTTTACCTTTTGTAGCATATGCCCAAAGTTTGCTTATATAAAACCCTTGTGCCCTGTCATTAGACAGTTTCAAGTATTCCATGTTTACCACTGAGTAACTAATAACCCTAATTTCCTTTTCAGGACTGTAGATGTCATGTCACTCCCTTTCTTCCCCAG
Seq C2 exon
GTGTTCAGCTCCCGACAGGCACTGAATGGCCATGCCCGCATCCACGGGGGCACCAACCAGGTGACCAAGGCCCGAGGTGCCATCCCCTCTGGGAAGCAGAAGCCTGGTGGCACCCAGAGTGGGTACTGTTCGGTAAAGAGCTCACCCTCTCACAGCACCACCAGCGGCGAGACAGACCCCACCACCATCTTCCCCTGCAAGGAGTGTGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496:ENST00000372922:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.783 A=NA C2=0.826
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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