MmuINT0083413 @ mm10
Intron Retention
Gene
ENSMUSG00000048039 | Isg20l2
Description
interferon stimulated exonuclease gene 20-like 2 [Source:MGI Symbol;Acc:MGI:2140076]
Coordinates
chr3:87938574-87940686:+
Coord C1 exon
chr3:87938574-87938774
Coord A exon
chr3:87938775-87939237
Coord C2 exon
chr3:87939238-87940686
Length
463 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTCATGTTCTTTTCCTTTAGGTT
3' ss Score
12.41
Exon sequences
Seq C1 exon
ATCTTGAAGATACTCTCAGGGAAGGTAGTGATAGGGCATGCCATTCACAATGACTACAAAGCCCTACAGTACTTTCATCCCAAGTCCCTCACCAGAGACACTTCCCGGATACCACTCCTCAACCGGAAGGCTGACTGCCCAGAAAATGTCACTTTGTCACTGAAGCATCTCACCAAGAAGCTCCTGAGTCGGGACATCCAG
Seq A exon
GTAACTTCTCTCTAAGTGCCCCCACCAAAGGTGACCCGGTAGCCCTGTCTGCAAGGAGAAATAATAAATCCTGGGTGCTTTATAGACCGTGCCAGATGGTACAGTGGGAAAGAAGAGCACTCAGCATTTCACATGCTCAGCAGTCAAGGACATGGCCACAGAATATGGAGCTCTGGGTACATGTCACACAGAGAACATTTAAGAAAGAAGACCCAGACAGTCTGTTTGACCTGAAATGTCCTGCCTCTGCAGAGCTTAATAGTAAGATACATATGCATCGTCACTCAAATGAGCAGGCCTTCTGGGAGTTGAAACTGAAATGTGCTAGGGAGGAGGGCCCTAGTAGACTTGTGACTACAACTCATAAACTATAGAAGAGAAAGTATAGACAACTAGCGGGATGCAGGGAGTCCAGTTGTCTGGGAAAAGCAACAGTTCTCGTCTTCATGTTCTTTTCCTTTAG
Seq C2 exon
GTTGGAAATACTGGACATTCCTCGGTGGAAGATGCCCAGGCCACAATGGAGCTGTACAAGTTGGTTGAAGTTGAATGGGAACAGCACCTGGCCCAGAATCCTCCAGAAAATTAGCAATCCCAGGGAGACACATGCAGTAGACCAACCCACAGTTCTTCCAGCTTCTCACCTGCAGAAGCTAGAATCACTGGGGAGAGGGGCTTGGCCAGAGGCTTAATACCCATTGAAATTTCATCTCAGCTATTTTGGTCACTGTGTGGTTAAGTGTCTCATGGAAGAGGAGAGCTTTCATGTTAAACCCACCTCTAGGTCAGGCAGGTGGCTCAGACCTGTAATCCCAGATACTTGGGAGGCTGAAACAGGTTATAGATGTAAAGTCTGCCTGGACTACAGAATTAATTCTAGGTCAGTGAGACCCTGTCCTAACATAAAAAGAGGGCCAGGGGTAAAGCCCAGCGCTAGAACACTTACCTAGCATGCATAAACCACTAGGTACAGTCTCCAGCAGTGGGGTGGGGGAGGGTAGAAGGAATGGAATACAAAGTCATGAACCATAACTGTTTACTTCTTTAGAGTGCTAACCACATGTCACAGGGTGCTTGTGCCAGTCAGCCTTGACTTTGAGGAAGCAAGGCACACCAGGGAAAACAGTGTCCCACACTACCTTCTCTATGGGACACATGTCATAGATATGTCTCCTTTTGGTGGGGAGTAGGGTAAAGGAATTGAGTTGCCAGGGCTGGCCTCAAACACTTGGGCTCAGATGACTTCTTCCTCAGGCCCGAGAGTAGCTGGGACTACAGGTGTGTGTTCACCACTGTGCCTAGTTCTTTTATTTTTTTTATTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATGGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCACGCTGGCCTCAAACTCAGAAATCCCCCTGCCTCTGCCTCCCGAGTGCTGGGATCAAAGGTGTTGCGCCACCACGCCCAGCATGGTTCTTTTAATTTTATGGGATTTTTTGTTCTAAAGTAAATAGCAGTATCTTTTCACTTTCAGACAAGTCCTGATTGGAGCTCAGCATAATGGTCTGTAATCTCAGGACTCTGGAGGCCAAGGCAGGGAGATCAAAAGTTTAAGACCAATCTGAGTGCATAGAAAAAGCTCTGGGTCAGAGAAGTAGAAACAGAGAAGGAAAGAATTTTGTGGTTGCTTGCTGAATTTTATAGCCACGTTACATAGCACTGACTAACAGTGTTTACTTAATTTAGGTTCCACTTAGTTTAAAAAGAATTTGTATAGTTTTAATCGTCTTTCAGCCTTTTCAGCCTTTCACCTTGCAAATGCAGCCTCTTAGTTCATACGATTCTTTTTATGGATTTTTATAATAGAAAACTGGTGGGTTTGTTTTTTGTTTTTTTTTACATATAAAGATCTATTTTTATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048039:ENSMUST00000055984:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.270
Domain overlap (PFAM):
C1:
PF0092919=RNase_T=FE(42.3=100)
A:
NA
C2:
PF0092919=RNase_T=PD(11.5=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTAGTGATAGGGCATGCCA
R:
CTGCAGGTGAGAAGCTGGAAG
Band lengths:
354-817
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types