MmuINT1014687 @ mm10
Intron Retention
Gene
ENSMUSG00000109372 | Gm19410
Description
predicted gene, 19410 [Source:MGI Symbol;Acc:MGI:5011595]
Coordinates
chr8:35805083-35806909:+
Coord C1 exon
chr8:35805083-35805266
Coord A exon
chr8:35805267-35806707
Coord C2 exon
chr8:35806708-35806909
Length
1441 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GCTGGCTTTTATCCACATAGATT
3' ss Score
6.64
Exon sequences
Seq C1 exon
GGATAAAGCCAGACTGTATAGGGGTTGACTGGATTGGAAGAAATCTCTACTGGACTGATGGGAGAGCTGGCCAGATTTTGGCAATTCAGTTAACTGCTATGGGGAGAGGAAAATCTGAATACACAGTTGTCTTGGATGACGACCTGATTCGGCCCCAGTCTTTGGCTTTGGATCCCTTAAATGG
Seq A exon
GTGAGTTGGTGTCAAAACACCAGGTTAAGAATCTCAAACTTGTTATTCCTCCTGAGTTCTACTTTGATGCTTGTGTTAGCTCAATCCAGAATGAGTGAATTGAAAACATGAACGTCTGGTTTTAGATCTAATGCTGATTGGTATCAACCCAAACTTTGGGAAAAGTTCAAAGTGCAATTTACATTGTGGTCATATAGTGGCATGGAAGGAAAACAATGAGCTCCTGGAACACATTGTATGATTTTTAAATGGCAGATAAGCAGAGAAGTAAGGATCATTAATTTATGATCATCCAGACTTGCGTTAAGCCTGAATGATTCCACTTACAGTCTTTTCTTTCTGAAAAAGGGTGTAATTATATAATTTAAAAAATTAGTGTGTATGTGTGCACTGTGCGCACATGTTCCAGTGCCATGGTGCACGTGCGGAAGTCACAGGAGAGCCTGTAGCAGCTGGTTCTTCCTTCCCAGCATTTCGTTTCCAAGAACTGAACTCACATTGTCAGGCTTCAAGGCAAGAACATTTCCCAATGACCCAACCTCCAGCCAAAAGACACACAAGTTAAGTTAACATTCCTATTCTGCCACTGGGATGACTCTGTGAATAGCAAATATAGGAAAAAGATACGGGAAACCTATGGTCCAGTGGTAACCCACATTTGATATCCTTTCTTTTTCTTACCTTTTCATGCATCTCAGAAATTGTCAGAATGGCTCACTCCAGGAAATGAACAGTAGTTTCTAGTACACTTATCAGCCATAGCCAATAAGGAGGTTTCACCTACACATCCATCCATGACAATTTTAAAAGCTATTTTTAATTTTTCCTTTTTTTCTATTTTTCTTTTTCTCACTATTTCTGTCTTTTTCTCTTCCTTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTTCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTTCCTTCCTTCCTTCCTTCCTTTCTCGCTCACTTGCTTTTTTAACCTACCCTCTAGTTAAGGAAAGACTGGTAAGTTCCATGAATACCTTCCAGGCTGTGGACTATTGTACTCCCAAGATTCTAGTGGTAATTAATGACAATTAAGCAATCATCATAAACTTTCAAGAAAATTTCCTTTTAATATTTCACAACTATACTTAAGAAACTGAACTAATTTGAAAAGTTGAAGAAACATTAATTGATCCATAGCTCAGTAATTTTTCCTTATTGCTATGATGACATTGAACTCTAAGCTACTATATTTTAGACACATATGGAATCTTTTTAATCTCTGAAAGTCACTGTTTTAAGAAGTTTATTGATAGACATGTTCTCCAAGGTGGTGTCCTACCTTAAAGCTGGCTTTTATCCACATAG
Seq C2 exon
ATTGATGTACTGGTCTGAAACTGGAGAGGAACCTCGAATCGAGCAAGCTGGCATGGATGGTAGCAGCAGAAAGATCCTTGTCAATCAAGGCCTTGGCCACCCAACTAGCATAGCTCTTGACCAGTTAAGTTGGAAGATATTCTGGTCTGATGAGAAATTTCACTGCATTGGCTCTGTCAACCTAGATGGCAGTGGCATTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109372:ENSMUST00000207505:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=74.2),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=61.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGGTTGACTGGATTGGAAGA
R:
AGGTTGACAGAGCCAATGCAG
Band lengths:
348-1789
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