HsaINT0172114 @ hg19
Intron Retention
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:18273]
Coordinates
chr6:42233489-42237586:-
Coord C1 exon
chr6:42235892-42237586
Coord A exon
chr6:42233536-42235891
Coord C2 exon
chr6:42233489-42233535
Length
2356 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTC
5' ss Score
6.49
3' ss Seq
CCTGTTTGGCTCAAAATTAGATG
3' ss Score
3.76
Exon sequences
Seq C1 exon
GTGTGAGCGACGTCTCCTCACCACAGTGCTGTGTGGTCTATACCTCAGCCAGGGAGAGGATGTGAAACCCCCCGCCCTGCACATGAGTGGTACAGGCCAACAGGAACACCTGGCTCCAGCCACGTTCACAGACATGTCAGCCGTGGAGTAGTGCTGACACTTTTCTCTCAGCTTCTCAGGGTTTCAGTCCTTTTGGGTTTGTTTTATTTACCTTTTTTATGGTTTTGTGGCTGGACGTTCACAACCAAGGCAGACAGCATGGGTGACCAGCAACTGTACAAGACCAACCATGTGGCCCATGGTAGTGAGAACCTTTTCTACCAACAGCCACCACTTGGCGTCCACAGCGGGCTGAACCACAACTATGGGAATGCAGTTACAGGGGGCGGAATGGATGCCCCTCAGGCCTCGCCAATCTCCCCCCACTTCCCTCAAGATACACGGGATGGTCTGGGCTTGCCTGTTGGCTCCAAAAACCTTGGCCAAATGGATACCTCGAGGCAGGGAGGGTGGGGAAGTCATGCAGGGCCTGGAAACCATGTCCAGCTACGTGGAAACCTGGCCAACTCAAACATGATGTGGGGGGCACCAGCCCAGGCTGAGCCCACTGATGGCTACCAATACACCTACTCCCAGGCCAGCGAGATCCGGACCCAGAAGCTTACCAGCGGTGTCTTACACAAGCTGGACTCTTTCACCCAGGTGTTTGCCAACCAAAACCTGCGAATTCAGGTCAACAATATGGCCCAGGTGCTGCACACTCAGTCAGCAGTGATGGATGGAGCCCCTGACAGTGCTCTCCGCCAGCTGCTGTCTCAGAAGCCCATGGAGCCCCCAGCACCGGCTATCCCTTCCCGCTACCAGCAGGTGCCCCAGCAGCCTCACCCTGGTTTCACTGGTGGGCTGTCCAAACCAGCTCTTCAGGTCGGGCAGCACCCTACCCAAGGGCACCTGTATTATGACTACCAGCAGCCTCTGGCTCAGGTGCCAGTGCAGGGAGGACAGCCACTGCAGGCCCCACAGATGCTGTCACAGCACATGCAACAGATGCAGCAGCACCAGTATTACCCACCGCAGCAACAGCAGCAAGCCGGGCAACAGCGTATCTCCATGCAAGAAATACAGACGCAGCCGCAACAAATTCGCCCATCACAGCCACAGCCGCCGCCACAGCAGCAGCAGCCGCAGCAGCTACAGCTGCAGCAGCGGCAGGGTTCAATGCAGATACCTCAGTATTATCAGCCCCAACCCATGATGCAGCACTTGCAAGAGCAGCAGCAGCAACAGATGCACCTGCAGCCTCCTTCTTATCACAGGGACCCTCACCAGTATACCCCAGAGCAGGCACACACTGTCCAGCTGATTCCCCTGGGCTCCATGTCCCAGTACTACTACCAGGAGCCCCAGCAGCCCTACAGCCACCCCCTCTACCAGCAGAGCCACCTGTCCCAGCACCAGCAGCGTGAGGACAGTCAGCTGAAGACCTACTCTAGTGACAGACAGGCCCAGGCCATGCTGAGCTCCCATGGGGACCTGGGGCCTCCTGACACAGGAATGGGAGACCCAGCGAGCTCAGATCTGACCCGGGTCAGCAGCACCCTCCCCCATCGCCCCCTCCTATCCCCCAGTGGGATCCACCTCAACAACATGGGGCCTCAGCATCAGCAGCTGTCTCCCAGTGCCATGTGGCCCCAG
Seq A exon
GTATTCTCCCATTGGAAGTTTCTCTCAATACCCAGTGTGCTACAGGGTCAGGGCTGAGTCTGCAGTGCTCAATCCTCTCTCCAAGCCCCCTCAACCCTTTTGTTCTTTACTAATTCCACAAACATTAACCTACATGTGTCACGCACTGTCTGTGCCAAGCACTTGGAATACAAAATCAATCTCTATTAAGTCCTTTGGCCATGGAGCTTATAATCTACTAAGGAGATGGCCAGAGTACCACATCATGCCCTAAATGATTCACGTAATGGTCAAGACCTTGAGTCACATGCCAGGGGACCACACAGTGTTGGTGTCTCAGTTCCCTTGGATCTGTGTGCTCTGGATATGCTCTGTGACATTGGTCCCCCTTTGGGAGGGAGACCACGTTATGACAGCATTTCTCAAAGTATATTGCTCAGAACAGCCATTCCACAGTGTTTAATGGATATTGCTGGGGAAACAGTGGGTTCTCAGGATAAATACACCAGGGTTTTTGTTTTTATTTTTGTTTTTGTTTTTTTTGAGATGGAGTCTCACCCTGTAGCCCAGGCTGGAGTGCAATGGCGCCATCTCGGCTCACTGCAACCTCCCCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTAAGTAGCTGGAATTACAGGCACACACCACCACACCCAGCTAAGTTTTTGTATTTTTAGTAGAGACAAGGTTTCACCATGTTGGTCAGGCTGGTCTCAAACTCCGACCTCATGATGCGCCTGCCTTACCTTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGTGCCTGGCCCCTTTTTTCTTTTTTTAGACAGGGTCTTGCTCTGTCACCCAGGCTGGAATGCAGTGATGCAGTCATAGCTCACTGCATCCTTGAACTCCTGGGCTCAAACGATCCTCCCACTTCACCCTCCCACATAGCTAGAACTACAGGTGCATGCCACCTGGGCCTGAGCACTTTCTTTGGTTTGGTTTTGTTTTGTAGAGACAGGTCTCCCTATGTTGCCCAGGCTGCTCTTGAACTCCTGGCCTCAGGCGATCCTCCTGCTTTAGCCTCCCAAAGTGAAACAGGGTGCTGTACTGCAGGACTTTTTGTGACCTTTAATATGGTAGTATGCATTGTGAGTCTCGCAGATACCATGTGTGATTGTGGAGATGAAAACCTTAGCTGCCCACATGATCCAGGCTGGGAAAGTAAATAAGCAAAACTGTCTGGTATGAGACATTAGGCAGTGGTGGTGACTGTGAACTAGAGAGCAGATGCCCCATCCCATAGCATTCTCATTAAGGGTTTTTAAAAAACAGTCTAGCCAAACAAACATGTCTGCAGGCCGGTTCATCTTGTGCACCATGATTAACCCTTGATTTGTTCCCAAAAATATTTGACCAGAAAACAGCCTACTATGTGCTGGGCACTTTTCATGCCTTGGCTTATTCCAAGGCATACAGTCACATGACAGCAGTGTCTGAGGAGGAGGTGACCCCAAATGGGAACTGGTTGGATAGAAAGAAAGTTCTGATGGAGGTTGAAGGCCAGAGATGAACTTCCCCTTGAGTTTGTTTTGTCTGGGGTTCAGAACCAGTGGTAACTGAGAGCCTTTGTAAATATAAGAATGAGATGATTTGGCTAAGGCTTTTTAAGAAGAATTCCAGGGCCAGATATGGTGGTTCACACCTATAATCCAAGCACTTTGGAAGGCCAAGACAGGAGGATCACTTGAGCCCAGGAGTTCGAGACCAGCCTAAGCAACATAGCGAGACCTTGCCTCTACAAAAAATCAAAAATTTAGCTGGGTGTTGTGGCGCACACCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGATTGCTTAAGTCCAGGTGGTGGAGGCTGCAGTGAGCCATGATCATGCTACTGCACTACAGCCTGGGTGACAGAGCAAGACCCTGTCTCAAAAAAAAAAAAAAAAAAGAATTCCATCAGGGGGTCTCCTGGCATAATGCTGCGTCTCCCACCTCTTTCTTCTGTGTCCCTTATGGGAATGGAGTCTGTCTGTGCACAGAGTGGGTGCCCTGGGAGAACAGGAAAAAACACGGTGGGGGAGTTGCATCCTGGTGGGCTTGTTGTGGCTGGCAGCAGCTCCAGGAGTGGGGCGGTGGTCCCAAGTCAAGGAGCAATTCAGGGACAGAAGTCAATTGCAGAAGAGTGAGGGAGTGAGTGGACATGAATGGGGTCAGCACGAAGCAGACAGCAGAAAGAGTCCTGGAAGAGTACCTGGTGTTCCCACTGCTCGAGGACTTCTCCCTTCAGAACACGTTTTTTTCTCTTCTTTTTTTCGGTGTCCTGTTTGGCTCAAAATTAG
Seq C2 exon
ATGCACCTACCTGATGGGAGAGCCCAGCCAGGGTCCCCTGAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-TRERF1:NM_033502:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.889 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- Autistic and control brains
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)