MmuINT1014762 @ mm10
Intron Retention
Gene
ENSMUSG00000094429 | Gm19965
Description
predicted gene, 19965 [Source:MGI Symbol;Acc:MGI:5012150]
Coordinates
chr1:116802983-116804107:+
Coord C1 exon
chr1:116802983-116803207
Coord A exon
chr1:116803208-116803980
Coord C2 exon
chr1:116803981-116804107
Length
773 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
ACTGTTAATTTTAACTTCAGGGA
3' ss Score
7.57
Exon sequences
Seq C1 exon
TTTGTTTCTTCTGCCTGTAGAAGCTCGTCTCTTCTTCATATCTCCTTTGGCACAAGCCATGGGGTGTGGCCAGTATTGATTTCTGCTTTCTACTCTTCAATTTTTCTATAAACAGGGAGGGTCTGTTGCTTCTACATGCAGATGGTTTCTGGAAGGTGAAATTTTAATGTAACTTTTGTGAGGCATTCCATTCTGATTGAGAAAGGAAAGATGTCTTCTTCTAAG
Seq A exon
GTATTTGTATGCATGGGATTTGGACAAATTGACTGTTTTTACAGAAATATTTCATCTTCATAACTTTCAAACCTTCCCTATTCTGGCTCAAATTTAAATAACTTTTTTCACATGATTCTCAGTATTACTTCTTTAAATGTTCTGTCACTGGTGAGCTAAAAATAGATTTTTCCTTTTGCCAGTCTCCTTCATTTTTTTCAATATGACTTGCATAAATGAAAACATAATTTGAATATACTTAAAATTGTCTAACCGCAAAACTGAGTGTATATGAGACTAAAGATGAGTGTATGTACTAGATTTCTACTGTGAGCCACTTGAGTCATTATTTGTGAAGAAAGGTGCATGTTTCATGAATCTTTCATCAGAGGGCCTATTGCAATAATTGTCAGCCTTCCTTTTGCTGCAACAATTTAATATGTTTCTTCATGTTATGCTGACCCAATTATGATTTTATTTTTATTGATACTCCAGAAATATAATGTTGGTACTCCTATGCAGATTGTTGTAAATCTCTCTAGTTTTTGGTGGCTTTGTGATCACCATTAGATCATTTAGGAGATCATGCCAGATAGCCTCAAAAATGTGGCCAATATCAGCATGAGTTTTTATTGACTATTGGAACTGATCAGAGAAATGACAGCATTCTTTATCTCAGACATAATTAACCAAATATGCATGTAAGTTATTGGTTGTTAAAAAAAAACTTCTATATTTAACTAACATTTCTTTGAACAATTGATAAAAGAGAATACTGTTAATTTTAACTTCAG
Seq C2 exon
GGACCATTGACTTTCATGGATGTGGCTATAGAGTTCTCTAAGGAGGAATGGGAATGTCTGGATTCTACCCAGAGGGCTTTGTATAGAGATGTTATGTTGGAAAATTACAATAACCTGGTTTCCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000094429:ENSMUST00000179777:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TCTGCCTGTAGAAGCTCGTCT
R:
CCACGGAAACCAGGTTATTGT
Band lengths:
343-1116
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