Special

MmuINT0005070 @ mm10

Intron Retention

Gene
Description
sperm tail PG rich repeat containing 3 [Source:MGI Symbol;Acc:MGI:1921722]
Coordinates
chr2:25214236-25214637:-
Coord C1 exon
chr2:25214495-25214637
Coord A exon
chr2:25214397-25214494
Coord C2 exon
chr2:25214236-25214396
Length
98 bp
Sequences
Splice sites
5' ss Seq
CCAGTAATT
5' ss Score
0.54
3' ss Seq
GGCTGTTGGCTTCCTTGCAGGCC
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGCAGTGCTCTCTGGCCAAGGAGCCCAAGCCCCAGAATGAACTTTGATCAGAAGGCTGTGAAATTCCTGGCAAATTTTTACATCAATGGAGGCAAACACTGGACTCGGGGCCCCCTGAGTCAGAAACCTCTTCATCCCACCCA
Seq A exon
GTAATTTCAGAGGGCAGTCGATGGGGGTGGGGTGGGAACGACAACCCAGTGGGAAGACCTTTGGGATGGATGAACAGTGGCTGTTGGCTTCCTTGCAG
Seq C2 exon
GCCCAGTGCTGCTGCTGTGTTATGGTGGGACCAGGAGCTGGAGACTGCCTGGGATGAGATGTGGCACCCAAAGATGAAGAGATCCTCAAGTGGCTTCAGGTTAAGAATAGGCGCCCCCAATGAGTCCACACCTATCAGCACAGGGACTCTGAGAGAGCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036770:ENSMUST00000114363:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact

In the CDS, with uncertain impact

No structure available
Features
Disorder rate (Iupred):
  C1=0.222 A=NA C2=0.367
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCTGAGTCAGAAACCTCT
R:
TAGGTGTGGACTCATTGGGGG
Band lengths:
167-265
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development
  • 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