MmuINT1030237 @ mm10
Intron Retention
Gene
ENSMUSG00000062997 | Rpl35
Description
ribosomal protein L35 [Source:MGI Symbol;Acc:MGI:1913739]
Coordinates
chr2:39004732-39005624:-
Coord C1 exon
chr2:39005084-39005624
Coord A exon
chr2:39004869-39005083
Coord C2 exon
chr2:39004732-39004868
Length
215 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
AGAGTCGCTCCTCATTGCAGGCC
3' ss Score
6.92
Exon sequences
Seq C1 exon
GAACAGTGGAAGAAGAGAACTCCCACAGGTTGTTCTCCAACCTCCATGCTCGCTGGCTCTCTCACATACACTTGCGAGGCATTGTGGCACTTGTACTGTCAGCATTAGGAAGCGATTTAGAATAAGACCTTGTCTCAAACTTTTAAAGAAAACCCTCACACCTCATGCCCTCCGCACCCTGACACCACCCGCGGCTAGCTCAGCCCCGCACAGACCAGAGAACTTCAAGCTTCCGAATAAAACCGAGGGAACAGAAGAACTGCAGCCTTCTCTGCGCTGCCTCCAGCCAGCCCGGTGTTGCTCATCGCGAGACTCAGTTTCCCCAGCTGGGTCGCTTAGAGACCAGCCAACCTTAGGAAGGCAGGACTTCCGGGAAGCGGAGGGCACCACGGCCGCGGCTGCGCAGGGGCGGAGCGGGCCTCCCAAACCGCGACGCTATTGGCCGTGCCCGGCGCCACCCGGCAGTAGTTGAGGAAGTCGGCCCCGCCCTTTCCTCTTTCTCTCGAACCAGGCTGCTTCAGCCGTGAACAACGCCGAAATG
Seq A exon
GTGAGGCTGCGGGAATCGGGTGCCATCGGTCGCCGGGGACACGTGGGGACAGTGGCGCGGGGCGCGGGGCGGACGGGGGGAACTCAGAGAGCAGCGGGGGCCGGCTCAGGCTGCCCGCCCTCGCTTACGCCGCGGCCTCTGGCGCACCGTCCCTCCTGGGTCGGCCGGGGACGAAGCGGGAGCTCCGTGACCCATAGAGTCGCTCCTCATTGCAG
Seq C2 exon
GCCAAGATTAAGGCTCGGGACCTGCGCGGCAAGAAGAAGGAGGAGCTGTTGAAACAACTGGACGATCTGAAGGTGGAATTGTCCCAGCTTCGGGTCGCCAAAGTGACAGGCGGCGCCGCGTCCAAGCTCTCCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062997:ENSMUST00000080861:1
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=0.087
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0083118=Ribosomal_L29=PU(69.5=89.1)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGCTTAGAGACCAGCCAAC
R:
GACCCGAAGCTGGGACAATTC
Band lengths:
307-522
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