MmuINT1012518 @ mm10
Intron Retention
Gene
ENSMUSG00000085767 | Gm13563
Description
predicted gene 13563 [Source:MGI Symbol;Acc:MGI:3652052]
Coordinates
chr2:26385451-26387089:+
Coord C1 exon
chr2:26385451-26385630
Coord A exon
chr2:26385631-26386924
Coord C2 exon
chr2:26386925-26387089
Length
1294 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCTTCATAACTTATCTGCAGCGT
3' ss Score
5.86
Exon sequences
Seq C1 exon
CAGCAGCCCGGCCCTGCCCACTACCCCAGAGCGGAGCCCCTCCGTACGGTCATCAGTTCAAGGTTCTGTTCGACTTGCTGGACTACTGACTCGAGGTCATGGAAGTCACTCTCCTCCTTGATCATCTTCGCCTCCAACTTCCGTTCGAGTGTCCTCACCCTCAGTAGAGGAAAAACTGAG
Seq A exon
GTAAGTACTCCAGGCCACTGTCAAGAATGCTTCCAACAGCACTTTAGTCTGATTAGCTGGTGAAACCCACTAGAACCTATGGATGGAGCAGCTGCTTCAGGCAGCCACAGGATGTCAATGGCCTCCAGCCCGAGTAGCTTTATGCTCCCAATAGAAGGCCCAGAGACCATTTTCTCAAGCTCTGCCAACCAAGACAAAATCCAGCCGACTGTCTTAGAAAGACTAAAGCAGAGCAGGAAAGTGCGTCTGCGGCTTTAGGTCTAGGGATGACAAGCAGCAAGGCTCCTCAGCCCGTGGAGCCAGGTTCCCTGAATGGTAGAGGAGGGTTTAAGGTGATGCCCAACTACAAGTTTACATACATTTCTGTTTGAGTTTCAGAGAAGCTCTGAACCTCATTTAGCTTTCTTCTGAGCTTAGAGTTTTCATCTTTCAGCTGTAGAAAAAAAAAAAGTCCTCATTAGACACCCGGTATGTCTCCCTCACAAGCGAACATGCTTCTGTTCTGAAATATTCTCTTTTGTGGGTCTGGAGGTGGAGCCTTATGCATTCGGGGCGGGCCAAGAGGTATGAAGATGCATCCCATGTGTCCATGAAATGTCTTTTTGAGACAGCATCTCCTGCAACCTAGTTTGCCCTTTACTTGTTCCCATGTAGCCAAGAATGGCCTTGCACGTCTCTTCCTCCTGCCTTCACCTTCCAGCGCTGGGATGACAGTTGCGTACTTCCATGCCCAGCTCTGGAACATAAACAGCTCAGGTCAAATGGCATCACCCTCAAGTGATGGAGGAGGAGAAGATGACCTGTGGCCACACACTTTACTTTTTCTAGGTGACTTATGGTTTTAAGGCCTTCCATCATGTGGGGCATTCAGCAAGATGACTCTTAGCCAACACTTCCAATAGACCATTTCTTCATGCTAGCTCGTGTCTGCCTGCCTGTGACCTCACCACAGTACTTCTCAGTCTGCTATACTAACTGCACAGCCAAAACCAACCCAAGGAAGAGCTCTCCATAGAGAAATTCCTTTTTCTCTCTTATTTTTCAGCATTCAGGATCTAACCCAGGACTTTCCAAGTGCTAGGAGAAAATTACCACTGAGCTATCTATTATCTCTATCTTTAGACCCCTCTTCAGGGCAATTCTACATCAAGCCATTATATGACTAACTGCCTTGTCCGTGGCATTGAGCCCAGGCCACCCAGGAAGTAGATGACTGCAGCTCCTCTCCACAACACAGCTCAGCTGTGTTGGGTGCCACACTGCCCTCACTTACTGCTTCATAACTTATCTGCAG
Seq C2 exon
CGTCCGCAGGTGTCTGTCCCCTAGGGATTCTTCATGAGCTGCAAAGTCTGCATTAGGACTCCCAGCTGGAGACGCTGGGGAGATCCTGGAGTCGGTGTCACTCAGCGTCCATGGGGGCAAAGACTCGGGACATGCCAGCTCTGACGAGTTGGAGAAAAAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000085767:ENSMUST00000125518:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGCCCACTACCCCAG
R:
CTTTCCTTTTTCTCCAACTCGTCA
Band lengths:
334-1628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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