HsaINT0139551 @ hg19
Intron Retention
Gene
ENSG00000148300 | REXO4
Description
REX4, RNA exonuclease 4 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:12820]
Coordinates
chr9:136279785-136283164:-
Coord C1 exon
chr9:136282740-136283164
Coord A exon
chr9:136280132-136282739
Coord C2 exon
chr9:136279785-136280131
Length
2608 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TATTTTATTTTGGGTCCCAGTGG
3' ss Score
5.69
Exon sequences
Seq C1 exon
GCGCTTCCGGGGACTGGAGCGTGCGTGCTGAGGTATGCGCAACGCGTGCGGGGTCTCTTCCGGAGTCTTTTCCTGGACGGGGTCCCTGCGGTGGGTGTGTTTCGGCCTGGCCTGGGCAGGCGCTTGTGCTGCCAGGGCGCCGGGCCCGGGGAGGCCGGGGTCTCGGGTGGCCGCCGGCCCAGGCGCTGGACGGCAGCAGGATGGGGAAGGCGAAGGTCCCCGCCTCCAAGCGCGCCCCGAGCAGCCCCGTGGCTAAGCCGGGTCCTGTCAAGACGCTCACTCGGAAGAAAAACAAGAAGAAAAAAAGGTTTTGGAAAAGCAAGGCGCGGGAAGTAAGCAAGAAGCCAGCAAGCGGCCCCGGTGCTGTGGTGCGACCTCCAAAGGCACCAGAAGACTTTTCTCAAAACTGGAAGGCGCTGCAAGAG
Seq A exon
GTGAGGCTTGAGGGGGCCCGGGCGGAGCGCTGCGCAGCTCATTCCCGCAGAACGCGACGGAGGGAAAGACTTGGGTAGCCCCAAAAGACCTGTAAAGGCAGATTTGAATCGAAATCTTGTAAACAGCTTTTCACAAGAAAGGTGGCCTGTTGAGGGAGGTCTCGAACTTGTTTGCTTGAAAGAAATTGATGAAAGAATTATTTCAAGTACAAAAAAGCAAAGATAAACCCTTGTACCTTTTGCATAATGAACTAACTAGAATGGATTTTACAAAGAGAAATTTAGCTTAAAATCCCGAAACCAGGCCGGGCGCGGGGCCTCACGCCTGTGATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCCCCTGAGGTCAAGAGTTCAAGACCAGCCCGGCCAACATGGTGAAACCCCGTGTCTACTAAAAAAGTACAAAAAATATTAGCCGGGCGTGATGGCGCGCGCCGGTAGTCGCAGCTACTCGGGGAGCCTGAGGCAGAAGAATCGCTTGAACCCGGGAGGCAGAGGCAGTAGTAAGCCGAAATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCATCTCAAACAACAACAACGAAAGAACACACTGGTCTGTGTAGCAAGACAGGGAGAAAGAAGATTCCTGTGTAGAAGTGAAAAGCAGATAGCAGACATGTGATGGGGTTCTAGCGACACTTACGGTCTTGAAGTAAATACTAATTGAGCTCCTAAAAATGTGCACTCTGCCATGTGCTCTATGCCATGTGTGTTGCAATCCCCACAATAAGACTGTGAGGTGGACACTTTCATCATCTCTATTGTACAGATGAGGAAATAGGCTGGAAAAGTTTAAATAGATCATCTAAGATTGCGGCTGGGAACCAGGTGGCTGACTCTGGAGTCCATGCTTTTAAGGCTGTGTTGTACCTGCTGTCTCCCTAGTGACCTGCACTTCTGTAGAGGTTGCCTGCTCTCTCCCAGACACTCTTCCACGTGCGTCACTCATACATTCTTACCACATCCCTTGGAGCTCCCTTGGAGCTACCTCCTGTTAGGATCATAGCTCACTGCTGCCTGGGCTCCAGTGATTCTCCTGCCTCAGCCTCCCGAGTAGCCCACACGTGTAATCCCAGCACTTTGGGAGGCCCAGGCAGGAGGATCACTTGAGCTCAGGAGTTCAAGTCCAGCCTGGGCAACATGGTGAGATTCCATCTCTAAATAAAAGTAAAAAGTAGTTTTTTTAAAAAAGAAATGTGATCCCCAGTGGTGGAGATGGGGCCCATAGGAGGTATTGGGTCATGGGGGTAGATCCCTCATGAATGACTTGGTGCCCTCCCCTCAGTAACGAGTAAGTTCTCACTCTGCTGGTTCATTTGAGAGCTGGTTGTTTAAAAAGAGCCTAGCACCTTTTTTGCTTGCTCTCTCACCACGCAACACACCTGCTCCCCCTTCACCTTACACCATGATGGGAAGCTTCCTTCGGCCTCACCAGAAGCAGATGCTGGCACCATGCTTCTTGTACAACCTGCAAAACCATGAGCTACATAAACGTTTTTTCTTTATAAATTACCAAACACAGGTATTCCTTTATAGCAGTGCACAATGAACTAATACAGATGGGGTTTCACTTTGTTGCCCAGGCTGGTCTTCAACTCCTGACCTCAAGCAATCCTCCCACCTCAGCCTCCCCGAGCGCTTCTTGAACCTCCTAATACTCTGCACAGTATCTCAGTGCAGACATTCCTGTCTTAACACACAGGACCAGTCAAATTCCCGTGGGCAGCCCCAGGGTTCTGTGGGATTTCTTGAACACCAACTCTTCTTCCTTCTCCCAAGAAAGAAAAGCAAAATAAGTGAATGGAAGGGATGTGTGCTATAGGGAAACTTTGGAGTGTTTTCTAATTCATCCAAGAAAGTCAGCCCTTCAGTTCTTTACCTATCACAGAACAGGTAAGTAGCACCCGCCTCATCATCGCACTGTGGTGGCGCCCACTCCCACTGGGGATTTGAACACAGGGAGGAAGCTGGGCTCTAAGACTACAGGAGCCTCTGCTTGGGTGACAGCCAAGGTGTGTGGCTGCTAGCAGTTCTTCAGCCACTCCAGTTTGACAGAAGCTTTTCTTTTCATTTATGACACCCCCCACCTTCCTGAGATCTTCACAGCAGTAGCAAACCAGGGAATCTTGTAAAAAAAAAAAAAGCGATTTCTGTGTAGCAGGATGTTGGCCCAAGCTGTGAGGGAAGTTAACTCCAAAATTCTTTCTAGATAAGCTGAAAAGGGAAGTGGTCTGTGGTGTCCAGCCACTCAACAGGTACCCAAGGTGTAGAATGAGTTTGACATTTTGTATGCATGAAGGAGCAGGTGCAAAATGCATTATAATAAGATAAGCAAAGAAACAGCATTTCACCACAAGTGACCCATGAGAATGAAAAAGAGCTTTTTCCAAACCGTTTGAAAATGAATTTCAGTGATGCGGATGGGAATTGTATAGATGTGTTTGGTGTATATGTGTGTATATACATACACACGTAAGTTTTTTCAATCTGCTGTGTGTAATTTCCAAATTCAAATGCAGCATGTATTTTATTTTGGGTCCCAG
Seq C2 exon
TGGCTGCTGAAACAAAAATCTCAGGCCCCAGAAAAGCCTCTTGTCATCTCTCAGATGGGTTCCAAAAAGAAGCCCAAAATTATCCAGCAAAACAAAAAAGAGACCTCGCCTCAAGTGAAGGGAGAGGAGATGCCGGCAGGAAAAGACCAGGAGGCCAGCAGGGGCTCTGTTCCTTCAGGTTCCAAGATGGACAGGAGGGCGCCAGTACCTCGCACCAAGGCCAGTGGAACAGAGCACAATAAGAAAGGAACCAAGGAAAGGACAAATGGTGATATTGTTCCAGAACGAGGGGACATCGAGCATAAGAAGCGGAAAGCTAAGGAGGCAGCCCCAGCCCCACCCACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148300-REXO4:NM_020385:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.995 A=NA C2=0.982
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0092919=RNase_T=PU(20.2=40.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]
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)