MmuINT0133831 @ mm9
Intron Retention
Gene
ENSMUSG00000052406 | Rexo4
Description
REX4, RNA exonuclease 4 homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:2684957]
Coordinates
chr2:26817903-26819906:-
Coord C1 exon
chr2:26819572-26819906
Coord A exon
chr2:26818244-26819571
Coord C2 exon
chr2:26817903-26818243
Length
1328 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TTTAATTTTGATTCCATTAGCTA
3' ss Score
3.7
Exon sequences
Seq C1 exon
GCAGGTCGCGAAGAGAACAGCAACCCGGGTTCCCGCATGCGCAGTGGAGCACGCTTGCACCCTGGGAAATGTGTGCTTGCGCGGTTGCTGGAGTCGCGGTCTCTTCCCTGGTGGTTCCGACTGCGGAGAGCGGGGAGATGAAGACGAAGGCCACCGCGCCGGTGCCCCAACCTGGGCCTATCAGGAAGCTCGCTAGGAAGAAAGCCAAGAAGAAGTTCAGGAAGAGCAAAGCTCTGGCAGGAAGTGGGGTTCCGGGAAGCCACCCGGCGGCTGTGGCAGGCCGACCGCCGAAGGCCCCCGAGAACTTTTCTCAAAATTGGAAGGCGTTGCAAGAG
Seq A exon
GTGAGACCGGCGACAGGCCACCTTCATCCCGAACTTTCTGTCAGGTAGCCACAGACTCCGAAGGAGGAAGGGATGTTGCCCTCTGCTTCATTCAAATTCTTTTTCTCAATTATGAATCACTTATCTAGGTTGCCACCCTGGCAACGTCTTAAACTATGTCCCAGAACTCTGGCCCAGTGGTTCTGGAACTATTGTAGCTCAGGGTATACCCACACTAGTGGTTGTCCTCCTACATTAGGTAGCCTCCCTAGTCCTGAGCCTCTATACCTACCCCCATTCATAAATTCTTCCATACTAGTTAGATGCTTTTTTTTGTTGTTTTTGTTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCCGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGCGCCACCACGCCCAGCTTAGTTAGATGCTTTTACTGCCCTTGTTTCTTAGACGGGGAAATTGTGACACATAACTTACAGGGTTTGAGTTGAAAGTAGGTCACATACGGTGTAAACAGCAGAACTGGGGTGCTGAATATGCCTTCACTGTCGACTTCTAGGGAGTCTTGAGGAGTGTATGTCATGGAGCCTCAGTAAGAAAGACAATAAGGAATTTCTTGGCCTCCATAACAACACTCCACCTTGTTCCTTAGTGTGGATCTTCCAACAGGACACCCAGGAGCAGCCAAACCCTGTGGACAGTCAGGGCTGTGTATGCTGGTTCTTGTTCTTTCTCCCAAGAAAGTAAAGTGTGCAGGGAGGACATGTTTACTAAAGGAAACTTGGATTTGGCTCTGGTTTCTACAAGAATCTAAATCCTTCAGGCCTTTTAAGTATTAGGGGAGTGAATAAGTAGAAACTCACTGCAACATCTCTCAGCTGGTTGCCATCTTGTTGTGGTCTTAACTGGAGATTTGAACACAAGGAAGAAATTGGTCTCCTGGACCTCTCCTCTACATGGATCAGCCCTATCTGGTTTCACAGGACTTCTTTCTTTCCATTGAACTCCCTTCCTCCAGGTCTTCCTTAGATTCTGAGCTGTAGCCGCCTCCAGAGATAACGGAAGTGATCACTGTGTCCCACAGTGTTGACCATGGAAGTCACTAAGTGAAACTCCAAATAAAGAAGTGAAAAGCACCATTAGTGGTGATGGGAAGTGCATGGATGATAGAATAGATGTACACACAAGTTTCTTGAACCTGTGGTATGTCAGTTCAAAATTAAATGTGGCTTTTAACAAAATAATAAATGTGGCTTATATTTAATTTTGATTCCATTAG
Seq C2 exon
CTACTGAAACAAAAGTCACAGGCCGCAGAAAAACCTCTTGTCTCTCAGATGGATGACAAAATGCACCCCCAAATAATCCAGCAGAACAGAAAAAAGGCCTCAGATAAATCAAAGGGAGACAAGCAGAGGACAGAAAAGGCCAAGAGCACTAGGGGTTCTGTTACATCTGCACCTACGGACAGGAAGATACTAGTACCTCCCACAGATACCTCTGGAACAGAGCAGAAGAAAGGAGCCAAGAAGAGGACATATAGTGACATCTCTTCTCATCAAGGGGCTCTCAAGCCTAAGTGGAAAGCTACGGAGGCAGCTGTTATCTTGAATCAGCCCACGCCCACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052406-Rexo4:NM_207234:1
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=0.904 A=NA C2=0.921
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:
ACCCTGGGAAATGTGTGCTTG
R:
GGGGGTGCATTTTGTCATCCA
Band lengths:
347-1675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: