HsaINT0172117 @ hg19
Intron Retention
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:18273]
Coordinates
chr6:42227077-42231306:-
Coord C1 exon
chr6:42231058-42231306
Coord A exon
chr6:42227462-42231057
Coord C2 exon
chr6:42227077-42227461
Length
3596 bp
Sequences
Splice sites
5' ss Seq
CTCGTGAGG
5' ss Score
3.7
3' ss Seq
GATCGTTGTTCCGGTTTTAGGAA
3' ss Score
9.39
Exon sequences
Seq C1 exon
GAGGAAGGAGAGAAGGTCCTGCCGCCTCAGCCCCAGCCACCACTGCCGCCTCCGCCTCCGCCTCCGCCGCCACCACAGCTCCCTCCCGAGGCAGAAAGCCTCACGCCTATGGTCATGCCCGTGTCTGTCCCTGTCAAGCTTCTCCCGCCCAAGCCCAGCTCTCAGGGGTTCACCAACAGCACCGTTGCCGCCCCCTCCGCCAGAGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCTGTGCTC
Seq A exon
GTGAGGATGACCCTCTCTCCCCCACACTCACCCCAAGGGGCTGCCCCCCGCACGCCTGCTGTGAGTTGCTGCTCTGCCCCACCTGCCTGGGTGGGGACATCCCTTTGCTTTCTTGGAGATGGGGCGGCCCTTCCAGAGTCACTGACCTGAGCTTGGATACGGCTTGGTCTCTCAGGGCTGAACCCGTGGCCACATTGGGAACCCTACCCTTGTTCACACTGCCTGCTCCCCATTAAATGCCAAACTAATGGCCTAGGTTAGATTCTGAGAGACCCGAAAGTGTTCCCAGGTTTAAACAGAGACGATCATTCAGCTGGGAGTCACTGAGACAATCATAGCCATTATTGAAATATGGAAGTCCTGTATCCCAGAAAGTAAGCAGCTGTTGCCCCAGGCCCTGGCCCCTTCCCCAGGATCTCCAGACCTCCCAAATCCACAACCAAAGAGGTAACCACTGGCGCAGCAGGCTTCCAGGCAATAGCCCTGGCATCCATTCTGACAAGCAGCCTTACCAGTTGCTTAATATTTTTGTCTGCTTAAATACCCTGGAGAACCTAATTCGTTAAAGTTCCCAAAGTAGTTCCACTGAGAGCCACCCACCCCTAATCTCAGGAAAGCAAAGAGATTTGTTTTTCTCACTCACTGTTCTCCTTTCTCCAATTTTAAGTGCTTCACTCAAACAGCTTAATTTGCCTCTGGGAAGGGTTTCCGTCTGTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCCCCTAGGGAATTTGTGACCTGTGTGGTTGGCAATATCAAACCTACCCCCTCCCCACAAAGTGGCATGTTGGGTCATATTTGTCCTTAGGAATAGGTAGCTGCTGGGAATCCAGGAGGCATAAGGGTAGGCTGGGCCAGGGTAGAGGGAGAGAAGATAATGAATACAACTAGAAAAGTACAGAAAAAAACCTTTATGGTGTAATATCAAGTCCTCAAAAGAAGAGAAACTGATGGAGAACTGGGGGGAAGATTCTCATAAGCCGTCAGGACTTGGGGGTCAGCAACAGGCAGAGAGATGAAATGACACATCCAAGCTCCCTCTTTGCCCAGGGAAGTTCGTGCTTTGGCAGGAGAAACAGTGTTTCCTTGGGGAAATAGTTCCCTTGGGGAACTCTCAATTAAGAGTTCATAGTCACATGGGGGTCAGAGTCCCAGGCACACCCCCCCCACCCCTTCAAGATGGTAAGAGAAAGACAGGGGCAGACAAGAAATTGATGCTTTAAGTGTGACTGGATGAGAATACACCTGGGTAGCCAAAGTCATTATGGACTGGGGAGGGGCAAGGGAGTTTGCTCAGGAGATCACCATTAGAGTTCTGAGCAGGATTTTGAAGGAAGGGATGAACTTGGCTTAATGGAAGGGTGAGAGAGACCTCGTTGGTGGGGGCGGTAGGCTGAAGTGGAAGCATGTAGGTGGGACTGAATACATGGGAACAAGGCCCTGGCACTTAATGTAAAGAAATTAAAACATCCAGGAAGGAGCCCCGAGTGCCCATCTCAGTTTGGCTCCTAGCCAGCTGGGATGAAGACAGCTGAGACCTGCCCCCCACTCACAGCCTCAGTTTCCTCCCCTGACCTTGATAGGGTTGGACTCATCAGTGGTTCTCATCCTTCTCTGTGGGCAGCTTTTTAAAGTTTTCAGTGCTTGGCCTCACCCCCAAAGTGTCCAAATAGCTTGGTGGGGTGGAACACTGTAAGTGTTTCCTCTCAAGTGACAACCATATATGACATCCTGGGTGGCTTCTCTTGCCCAGTGGCTCAGAGCCTTGCCTGGAGGATCGGAAAATCCAGGTTTAGAGCTGGAGTAACAGGACAAGAAGCTGGAGGAGAGGGAGCCCAAAAGGGACCTCTGGCCCTGTGATCAGAGGTCTGGATTGCAGTGCTGCGTTGAGATCATATAAGGTCTGCATGTTCTTGGATGATCTTATCTGTTACCCGGGAACAGAGTGTATCTTCAGGGCTGCTCCCCTTGGGGGGGGCACAGGCCTCCTTCCCCCATTCTCCTCAGCCCCTCTCTCGCCTCAGCCTCAGGCGCTGAGGAGCCCTCTGGTGGAGAAAAGAGGCGGTTGAGCGCGCTGGCCTAAGGAGGGTCCCCTGGGGGTGAGGCGCGGGGATAGGGGAGGGGTGGGGGCGGGGGTAGTTAGGAACCTCACTCTGGAGCCGGGAGCCTGGGACCCTCTGCCCCCTCCTCCTTTCCCCACTCTCTGCCTCCCTAGACTCCTCTCCTAGAGGCCAGGATGGCACCATGGAAGGCAGAGAAGCTGAGGGAGAAACAGAAGGGGGCAGAGCCTGAAGCTCTGGAGGGAGAGGAGCCCAGAGCAGAGGAGCCCATGGGGCAGGTCACATGGCCTGGAGGCAGATGGTCACATGACCGTAGCCAGCCCTTCCCATCACCCCCTGCTGCTTCCTACCCAGGCGCCACCCTGGGCTCAGGAGTCTCCAGGACCTGCAGCTGTGACTGGCCCCTGGCCTGCAGGGCCTGAGAGGGCACCCCAGACTGCCCAGAACCTTCCCTCAGGTATCCCCGTGGCCCCTCCCAACCACACTGCCTCTGCAGCCACACCCAGCTCTCGACTTTTCTGGGCTGATGCTACCACACAACCCGAGTCTGTTTCTGTTTGGCTTTGGCATGCCCTGCTCATCTGTTTACGTGCCTATGTTTACTTATTAGTATATATGTATCCATGTGGCAGATCCTCCTTCCAGACTATGCTTGGTTCCGCTGCCATTAAAATAAACTAACTCTCCTGACAGGAAGCCAACCTCAGAGAAGAGTTTGCTACAAATAAGCTACGAGTTCTGGGAGCAATAGTGAGGGGTGGTGACGGGGGAGGTTAACCAGATCCGTTTTTAGGTGAGCACATGGAAGGGCCCTTAGAGGTCATCGAAGGCTCTCCCCCCCTGCTGAAAGTGACCCAGGAGAGCCCGGTGTGGGTCGCTGGCCTTAGGAACCTTGGCTAGGCTTGAACCCCCACTTCCTGCCTCACAGGTCTCGGTCCCAGCTTCCCTGAAGAGATTATTCTGTCCCCTTCTCAGAACATGTGGTATCTGTTCCTGATGTCCGTCCCTGGGGAGCAATGGGGGAATTAAAGAGCCCACTCAGCTGGATTCCACTCAAACAGATGGGAATGTAGTGATAAGCAATAAAGAATTTGAATTTATTACTTCTTGCCCACCCACTATTCCTACCACCCCCAGCTCTTTCAGAAATTAGGGATTTCTTCCAAAACCTTAGTTTTCTCCCTAGTCTAGCAACCAGAACTCGCTTTGCCTAAAATGGATGTGGTCAGAATGTGGGGGCGTTGGGGGTGGGGGGGTCAAGCAGAAGGGCTCTCTGCTTAGACAGTAGAAGGCCCCCTTCCCTGAACCTGTGGAAATGGCCTGCGGGGGAAGCTGAAGTATTCGAATCAGATCGTTGTTCCGGTTTTAG
Seq C2 exon
GAAATCCCCAGGAAGCATCAGCCGAGTGTGCCCAAAGCCGAGGAGCCCCTCAAGACCGTGCAGGAGAAGAAAAAGTTCCGGCACCGGCCGGAACCTCTCTTCATCCCGCCGCCGCCCTCCTACAACCCGAACCCCGCTGCCTCCTACTCGGGCGCCACCCTGTACCAGAGCCAGCTGCGCTCCCCGCGCGTCCTCGGGGACCACCTGCTCCTGGACCCCACCCACGAGCTGCCCCCTTACACGCCCCCACCCATGCTGAGCCCGGTGCGCCAGGGCTCGGGGCTCTTCAGCAATGTCCTCATCTCCGGCCACGGCCCTGGCGCCCACCCGCAGCTGCCCCTGACGCCCCTGACGCCCACACCACGGGTGCTGCTGTGTCGCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-TRERF1:NM_033502:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.809
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
- 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)