MmuINT0036540 @ mm9
Intron Retention
Gene
ENSMUSG00000029516 | Cit
Description
citron [Source:MGI Symbol;Acc:MGI:105313]
Coordinates
chr5:116376468-116377964:+
Coord C1 exon
chr5:116376468-116376611
Coord A exon
chr5:116376612-116377844
Coord C2 exon
chr5:116377845-116377964
Length
1233 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGC
5' ss Score
3.73
3' ss Seq
AACATCTTTGCTTTCCGCAGAGC
3' ss Score
9.81
Exon sequences
Seq C1 exon
ATGGAGCAGGAAATGACCCGGTTACATCGCAGAGTGTCAGAGGTGGAGGCTGTGCTTAGTCAGAAGGAGGTGGAGCTGAAGGCCTCTGAGACTCAGAGATCCCTCCTGGAGCAGGACCTTGCTACCTACATCACAGAATGCAGT
Seq A exon
GTGAGCCTCCCCCAAAGCCCCCTTCTCTCGGAGGCGGCACTTTCCCGTCGTGTGTGTCTCATCCTGTTCCATGACAGCTCCATGAGGCACGTCACGGCCCGATGGCAGAGTAGAGAGACACCGAGTGGAAAGGCAGAGTTAGCGTGAACTAGGTGCGAGGCGGAGTCGGGCTGGAACCGGCACTCAGCAGACAGCCAGCACCGACTGCCGAGCTCCGCCAATCCCAGAGACAAGGATCACTGAAGCCTTCCGCAGAGGGTCTCTAGTCTAGGCTGTGTCAGCTTTGAGGACTAAACTCCCCAATTCGTGTCAGAAAACATAATTTGGATCCATCCGGAATAAAATTTTTTTATTCCCTTAGAAGCAGTGTAGCCCAGGAGACTCGGCCTCTGAGATCCAAGCTCTGTCATTATTTCCATTGCAACTCCATTCTTTTTTTTTTTTTTTTTTTTCCTTTCCTTCACAAGAGTAGACTGTCTCCTTCATTGTCTTGTGGACGTTTTCATTCAGGTGTTCTCGACTGTGCCCAATGAAACAGTCATAAGAGGTGGAATCACACATTTATAAAGTTTTTTTTCCTCACGAGGGAGAGGAAATCTATAGAATGTGGCTGATTAAGGATAACTGCTATGTTTGCCTTCCAGACTTGGCTGCCTTTCAGTGGTGGGTGAAGTTTACAGCTGTGTATTTCAGCTGTCTCTCTCAGTGCCACGGAAGCCCGGGGGGCGGGGAGGAAACTGATGGATCATAGGTGTCTAGGAGGCGGGTCAGGAGGCCGGTACCCAACTGGACTCTGAAATGACAGCCAGGTAGACCATGCAGCTGTTGCTTCTTTGAAACAGACGGATGCACCCGAGAATCTGGAAATGCCTTTCATGTCCTAGATTACACTAGATAGTCATGGAGGTGGCGGTTCTGACAGACACAGGATCTTACTGGCTTTAAGTCCTGAGCATACAAGTGAGTAGGTGCCAGAATAAGTAGACAGTGCCAGACGATTAGCCGATAGAGTTTCCGGCTCCGCCCCCGTAAAGTTGAGCTTGCGATGACTGGCTTTTTTCACCAAGTAGCTTTTACAGGGCGAAAACTGGAACCGGCAACCCGCTTCGTGTTGTCTCCCGTGGCCCATCACCCGACACCTTCCTGGTGTCCGCGGAGCTCTCCTAATGAACCTTTTCAACCAGAACAGGGGATCCGTGGGGCATCCCTATTAAACATCTTTGCTTTCCGCAG
Seq C2 exon
AGCTTAAAGCGAAGTTTGGAGCAAGCGCGGATGGAGGTGTCCCAGGAGGATGACAAAGCTCTGCAGCTTCTCCACGACATCCGAGAGCAGAGCCGGAAGCTCCAGGAGATCAAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029516-Cit:NM_007708:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.473
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:
ATGGAGCAGGAAATGACCCGG
R:
CTGCTCCTTGATCTCCTGGAG
Band lengths:
264-1497
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: