MmuINT1016304 @ mm10
Intron Retention
Gene
ENSMUSG00000101451 | Gm29430
Description
predicted gene 29430 [Source:MGI Symbol;Acc:MGI:5580136]
Coordinates
chr6:52183110-52183814:+
Coord C1 exon
chr6:52183110-52183189
Coord A exon
chr6:52183190-52183609
Coord C2 exon
chr6:52183610-52183814
Length
420 bp
Sequences
Splice sites
5' ss Seq
GAGGCAGAC
5' ss Score
-2.34
3' ss Seq
CAACCAATTCTAGTTGCCAGGAG
3' ss Score
-2.81
Exon sequences
Seq C1 exon
GAAAAAAAAACATTCATACATAGAGGAGCTGAGCTTTTGCTGTGGGAAGCATTGTGGGTCTGCTCTGATAAGAGACTGAG
Seq A exon
GCAGACTCTTCAAGGCCTACACACTGGAAAGACTGCATAGAGGACAGAGAAAATGCAGGTTGGTGGAGACAAGTTTTCTCACCCCAGAGCTGGGACTGGCTGGCAGTCTCCAAACTCACAGCCTCCAGGGTCTGTCCACAGCCACAGCCCACATGGCAGCTGCCTTGCTGCCCTGGGCCCTACTTGTTTTTGCTTTACAGTTGGGTGTAGTGGTCTGTTTGGGGCTTGTAGGAAGACATTCACTCACCCCCTCAGGCTCTCCCTACTTCATCTTTTGCTTCTGCACTCTCTGCCTACTGTAGACTTTGGAGCCTGCTCTTTGTCTGCCTCGTGCCCATATGGTCCTCCAGGAGCCCAGCTCCAAACTCTGCCAAAGTTAAATATTGACCAAAACCTCTTTCAACCAATTCTAGTTGCCAG
Seq C2 exon
GAGCGGGGGTGGGGGTGGGGTGGGCGGGGGAGGTATACTTCTCCCAGCCTCCTGGTGCAAAGTCCCAAACCTGGGGAAGAGTTTGGTGCAAGGCTTACCTCCAAAGATGTTTAAATCTGAACCAGGAATGGTCTCCAGTTCCAGGTGCTCAGGGAATCTTTTTTTCCAGTGTCCAGGCACTCTGCAGAGAAATAAACACCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000101451:ENSMUST00000191453:1
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACATTCATACATAGAGGAGCTGA
R:
CCTCTGGTGTTTATTTCTCTGCAGA
Band lengths:
278-698
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