MmuINT0037117 @ mm10
Intron Retention
Gene
ENSMUSG00000053063 | Clec12a
Description
C-type lectin domain family 12, member a [Source:MGI Symbol;Acc:MGI:3040968]
Coordinates
chr6:129353352-129353835:+
Coord C1 exon
chr6:129353352-129353450
Coord A exon
chr6:129353451-129353646
Coord C2 exon
chr6:129353647-129353835
Length
196 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGT
5' ss Score
3.86
3' ss Seq
AAAAAAAAAAAAACCTGGAGTTT
3' ss Score
-15.12
Exon sequences
Seq C1 exon
TATCCGCCGATGCTTCCCATTCACAGCAAAAAACAGTCTTGATTCTGATTCTTCTATGCCTTCTGCTGTTCATTGGAATGGGGGTCTTAGGAGGCATCT
Seq A exon
GTATGTATTACCCATTCTTTAAAAAGAAATTTTACATTTAATTAAAGTATAGTTGCATCATCCCCACTTCCCAATAATCCCTCTCATTCTCCTGCCTTCTCCCTCTCAAATTATGTTACTGAGAATTTATAAGTCTTAAAATCATCTACTCTTTTCTTTTTTTCTTTTGTCTTTAAAAAAAAAAAAAAACCTGGAG
Seq C2 exon
TTTATACAACTTTGGCAACAGAAATGATAAAATCGAATCAATTGCAAAGGGCCAAGGAAGAACTTCAGGAAAATGTTTCCCTACAGCTGAAGCACAATCTCAACAGCTCCAAGAAAATCAAGAACCTTTCTGCCATGCTGCAAAGCACAGCCACCCAGCTGTGCCGAGAGCTGTATAGCAAAGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053063:ENSMUST00000065289:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0033515=Tetraspannin=PU(21.9=82.4),PF0139217=Fz=PU(0.1=0.0)
A:
NA
C2:
PF0033515=Tetraspannin=FE(49.2=100),PF0139217=Fz=PU(59.4=98.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCCGCCGATGCTTCCCATT
R:
GCTTTGCAGCATGGCAGAAAG
Band lengths:
245-441
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