MmuINT0037124 @ mm9
Intron Retention
Gene
ENSMUSG00000030158 | Clec12b
Description
C-type lectin domain family 12, member B [Source:MGI Symbol;Acc:MGI:1918433]
Coordinates
chr6:129329541-129330085:-
Coord C1 exon
chr6:129329931-129330085
Coord A exon
chr6:129329657-129329930
Coord C2 exon
chr6:129329541-129329656
Length
274 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGG
5' ss Score
7
3' ss Seq
GTGCTTTCTCCCATCCCCAGGAT
3' ss Score
11
Exon sequences
Seq C1 exon
ACCATAAATGCAACCCTTGTCCCAAGACATGGCAATGGTATGGAAACAGTTGCTACTATTTCTCAATCAATGAAGAGAAATCCTGGAGTGATAGCAGAAAGGACTGTATAGACAAGAATGCCACTCTGGTGAAGATTGACAGCACCGAAGAAAGG
Seq A exon
GTATGGTTGATTCTCCTCCCCCAGCTATAGAAATTGCCCATACAATGAGAAACGAATGTGAGGTGTTCCTGTTTGTAATAGGACATTAGTGGATTTTGAGTGATAACTAATAAGGGATTTGCAGCACTGGGCGTGGACCTCAGGACCCAGCACATGTTAAGAAAGTGTTCTACCACTGAGCTAAATCACCAGCCATCAAATGAACTTAATGAGTTAATCTCCCCACTGTAACCTGGAAGATGGGCCTCTCACTTGTGCTTTCTCCCATCCCCAG
Seq C2 exon
GATCTCCTTCAGTCACAGCTGTCCCTCACATTTTCTTTCTTTTGGCTGGGATTGTCCTGGAACTCATCTGGCAGAAACTGGCTGTGGGAGGATGGTTCATTCCCCCCTCCAACCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030158-Clec12b:NM_027709:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083915=Ly49=PD(16.5=38.5),PF0479111=LMBR1=PD(22.0=51.9),PF0005916=Lectin_C=PU(25.7=51.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.2=100)
Main Inclusion Isoform:
NA
Other Skipping 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:
ACCATAAATGCAACCCTTGTCCC
R:
GGGGAATGAACCATCCTCCCA
Band lengths:
260-534
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: