MmuINT0036539 @ mm9
Intron Retention
Gene
ENSMUSG00000029516 | Cit
Description
citron [Source:MGI Symbol;Acc:MGI:105313]
Coordinates
chr5:116375403-116376611:+
Coord C1 exon
chr5:116375403-116375508
Coord A exon
chr5:116375509-116376467
Coord C2 exon
chr5:116376468-116376611
Length
959 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
CGTGCGTGTGTTTATTTCAGATG
3' ss Score
11.04
Exon sequences
Seq C1 exon
GTCTGTCGTGTCGAGTCTGGACTCCCCTGCCAAGGTTAGCTCCATGGAAAAGAAACTTCTCATCAAAAGCAAAGAGCTCCAAGACTCCCAGGACAAGTGTCACAAG
Seq A exon
GTATCTATCTCCACAGCCGGCCTCCGTCCTTGCTCCAGGATCCTCCAGTCAATATATGCCGAGGGATCTGCCGGGGGCCACTGCTGAGCGTGGTGCCGCCTCCCTCGCTGAAGTCGTGCCTCCAGCAGCTCAGAGGGAGAGGACTCCAGGCCCAGACATTGCCATAAATCCTTTAAATCTTAACCAGAGGAGGCCCTGGATTTAAAAAAAAAAAAAAAAAAATCGGCCCGTTTCTCAGCATGACCCAGCCGGATGTCCACTTCTTCCGGCAGGCGGCCTGGGTCCTCACCTGGGCCTGAGACGCGTCCCATCTGCTCGGAGCGAGGCGAAGCGTGTCTTGCCAGTCCTTTAAAACTTCTGCTCGTGTCCCTGCGGCCACTGTGCTGGCTATGTTCTCGTCTCTTAATGCTCACTGTTCCTGCCCAGAGGCAACTCTCTGAAAAAAAAACATATTAAGAGAGACCACTGCTTGTGTGGGACACCTGAGAGTACAAACGAGTAATCCCCTCTCGGCCTGGTCCCGGATCTGTCCTCCAGGTCTTTGCAAGGAGATGGGGGGGACCAAGATGGATTTAGGATAAAATTAAACTGGCATCCGAATAAGCCAGACCAGTACAAAAAAAAAAAAAAAAAAAAAAGGCAAACAGGTGACTCCCGATGCTGGTGGCTTCTGTGCTAAGTGGGTTAGAGAAGTGACCGTGCGAGCGAAACAGGACTTGGATGACAGGACTGACCTAGCCTTTGGTGACTGTCTTTTTGAAGAACTGTATGCTCCTGGGCGAAGAAGCAATGGTATTTCCATCACAGCTCTTGGCGAATTAGCGGTAACCACCCCCCAGGCCACCAGGTGGCCTAGGGCCCACCCCACATCCCCAACCCCTCTTGACGAGTGACTGCCCCCACGCAACCCCACCCTACCCCCCCAGGTCCCTTTTAACCCGTGCGTGTGTTTATTTCAG
Seq C2 exon
ATGGAGCAGGAAATGACCCGGTTACATCGCAGAGTGTCAGAGGTGGAGGCTGTGCTTAGTCAGAAGGAGGTGGAGCTGAAGGCCTCTGAGACTCAGAGATCCCTCCTGGAGCAGGACCTTGCTACCTACATCACAGAATGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029516-Cit:NM_007708:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.148
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTCGTGTCGAGTCTGGAC
R:
TGCATTCTGTGATGTAGGTAGCA
Band lengths:
247-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: