HsaINT0139555 @ hg19
Intron Retention
Gene
ENSG00000148300 | REXO4
Description
REX4, RNA exonuclease 4 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:12820]
Coordinates
chr9:136273892-136276193:-
Coord C1 exon
chr9:136276105-136276193
Coord A exon
chr9:136273967-136276104
Coord C2 exon
chr9:136273892-136273966
Length
2138 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
ATTATATTTTATTTTTCTAGGTA
3' ss Score
10.03
Exon sequences
Seq C1 exon
GAGAAGAGCTTGAAGTTGTTCAGAAGGAAGTGGCAGAGATGCTGAAGGGCAGAATTCTAGTGGGGCACGCTCTGCATAATGACCTAAAG
Seq A exon
GTACTGGGCTCTCTCCTGGGGACTCAGCCTGCCCCTGCTCCGTGGGTGTTACACTCACGCCCTTGCTGTGTTGGGGAGTTTTAACAATGTGTGGGTTTGTGCTCTATGTTGGGAATACTTTGGTAATAATATCAGATACCGCGTGCTGAGTTCTTACTGTGTTTTAGGAGCCATGCCAGGCTCTTGTTTTGAGAGCCCCCAGCGAAACTGGGGTACCCATACCAGAGCAGCTGGCAACCCCGCCCTAATGAGAAATGAAGGTGCTGATACCCCTTTTACCTGGAGGAAGGCCTAATGTCCAGTTGTCCCATCCGTGACCAGGGTCCCTCCACAGGAAACAAGTTTATCCTGGCAGATGCCCTGTGGCCCATGTTCAGGTTACGCTTGCCTAACCATCACCCTGGCCCTGGGAGCTTGCCTTTGCCTTCTTTCTGGCGTCCCGAGGAAAATCCCGCCTGGGGCAGCCCCTGGTTCTTCAGATGGAAAGTGCAAATTCAGACACCACCACCGTGGGAAACAAGTTCAAAGACATATACAGACCCTGGGCAGGGAAGGCGTCATGGGTGGGGAGGGCAGCCTGCCATCTCCTGGTCACCCGAGGCAGGAATGAAGAGTCAGGCAGAGCGAGTACGTGTGTATTTACAGGAGAACAGGGTGGGGGTCACTTTGAGTTTATGGGCAAATGCCTGGATGTTGGTTTAAAGGACACAGTGGGAACAGCGGGGAGGCCAGTCTGCTAGATGGGAGAGACACTTAAGTTGTCACCTCTGCCCACCGGCTTGAAGCACTTGAGTGTGGTGAGGAACTTGAAGCCGTTCAGAAGGAAGTGACAGAGATGCTAATGTTCAGGCAGCAGCCTTTGCTATGGTGCTCCCGTGACGGCACTGTAGAGATCCCTTGAATCCATTGAAGATGCTGGAGGTGTTCATGCTTGTTTACAGAGGGTGAAACTGAGGTGAGAACCCCCCGGGCAGTGTCCTCACAGAAAGGTCTTCTGTGTGCTCCTGCTGTACCCCCTCAGAGACTGCTGCCGTGGGGACTCGTCCTTCCCTCCTGACTCTGACTCCATCCCTGGCACCTTGCGCAGCACATGTTCAAGTCTTTCTTGAAGATGATGCTAAGGACCAGACACAGTGGCTTATGCCTGTAATCGCAGCTTTTTGGGAGGCTGAGGCTGGAGGATTGCTTGAGGCCGGGAGTTAGAGACCAGCCTGAGTAACATAGGGGAGACCCCATCTCTATAAAAAATTTTAAAATTAGCCAGGTGTGGTGGCGTGTGCCTGTTGTCCCAGCTACTCAGGAGACTGGGGTAGGAGGATCAGTTGAGCCCAGGAGGTTAAGGCTGCAGTGAGCCATGATTACCCTATAGCACTGCAGCCCAGGTGACAGAGTGAGATCCTATCAAAAAACAAAACAAAACAAAAAATTGCATGCTAAGATTGCAAGATGAGCTGTTAAAATGTGTTATTTGCAACTTCCTGATGTGTAGAACCAACTCAAAATACAAGTATAATATAGGAATAAGTTGGTTGCTGGTTAACTGTTGACTGTTTTTCTCCTACTTCCTTGATTTCAAGATTTTGTTTTTATTGTCTCTGACTGTTGGGCATCAGCTTAAGTCAGTGCAATAAATTTCCTTCTGGAGTTGAAATTCATATCAGTGCCTTGTTTCCATGTGTGTGTGACACACTTGGATTCCCTACAAGATGTTACTTGCAGGGCAGCCGCGTTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCTGTCTCTACTAAAAAATACAAAAATTAGCCAGGCATGGTGGCGGGCACTTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAAACCTGGGGTCGGAGGTTGCAGTCAGCAAAGATTGAGCCACTGCATTCCAGCCTGGGTGACAGAGCAAGACTCCGTCACACACACACACACACACACACACACACACACACACACACACACACACAGATGTTACTTGCAAAAGGTGGCGGGGGGAGGGGGTTCTGCTACTACAAACCAAAAATGAAAATGATTATCATTATATTTTATTTTTCTAG
Seq C2 exon
GTACTATTTCTTGATCATCCAAAAAAGAAGATTCGGGACACACAGAAATATAAACCTTTCAAGAGTCAAGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148300-REXO4:NM_020385:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.387
Domain overlap (PFAM):
C1:
PF0092919=RNase_T=FE(25.4=100)
A:
NA
C2:
PF0092919=RNase_T=FE(21.1=100)
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:
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
- Pre-implantation embryo development
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)