MmuINT0037160 @ mm9
Intron Retention
Gene
ENSMUSG00000033082 | Clec1a
Description
C-type lectin domain family 1, member a [Source:MGI Symbol;Acc:MGI:2444151]
Coordinates
chr6:129385135-129387030:-
Coord C1 exon
chr6:129386932-129387030
Coord A exon
chr6:129385312-129386931
Coord C2 exon
chr6:129385135-129385311
Length
1620 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
GACTTGGTGACATGATTTAGTTT
3' ss Score
1
Exon sequences
Seq C1 exon
AGAATGGGACACCCTCTTCAGTTTGGCGCCCAGTGGCCCTGACCCTGCTGACCTTGTGTTTGGTGCTGCTCGTTGGCCTGGCAGCCCTGGGCCTTGTGT
Seq A exon
GTAAGTCTGCATTCTATTCTGGGGAAGGTTCCTAATTTCTCAGTTTATGCAGGACCTATGCTTGCTATGAGTTTCTTAAAACCTTAACTCTGGAGTCTCATCATCTTTCTAAAGGCAATTATTTAATTGACTAGAAGTTGAAGTATTGAAACACAGCAAGCATCTTCTGGTTAGAACTCATTGCTTGAGATAAGTATTGTATGTGTTTACATGCCAGTTTCTGCACACATCCATCTTCTACAAAAGGAGCATCAAAGTGCTCAATCACTGTTGTCAAAAAGGCTTGCAAATAATATAGCTATTTTGGTGGGGGAAATGCTTTAAAATCAAACAAGGAAGATTGCATGTATAATCCCTTTCCATTTCAAAGCTGTAAAGGTCAATTTCTTGATAGACTCTGGTAAATTACCTTCATTAGACTAAGAAACATATGGCCCCTTCCTGAACTGCTGAAGGTGACTCTGGGCAAAAGCCACACAGCAAATCAAATCAGGTCACAAGCTGATTCTGCTAAAGTAAAAGTTAAATCTGTGGACTTCAATTTAAAAGTTAAAAAGAAATCCGGTTAGCTCTCTCTACACCCAAATTTACATAATCTTGGTATAGCACTTCCTTATAATCACTTTTTCTTTTAGGAATGTAAAGTAACTCCCATGACTTATGACACATTTCTTGAGATTTAGGAAACCAAACTTGAAGCCTGTGTTGAAATGTTTTTAGTTGAGCGACGTCAGAGCAGTGACTTGTCCTCATGGAACCTAACTGAAAGGTTCCACAAATATATAAAACTGAGATCAGAACATTTTACTAATGGAATGAACAAAAGGATGTGGCATCTTTCCAATATATTCAACATAGTAAATGCTCAGTAGATGGGTAGATTTGTAGTTTTATGGTTTTTTTTTTTTTGGTTTTGTTTTGTTTGTTTGTTTTTTATTTTAGGTGCATAAAATATTTGTTGAGCAAGGATACAGATTGGTATTGAGTTCTTAACATGCAAAGTTAAAATCACTAATATGAACTATAGAAATGATCCCTGAAAGTACAGAAGTGGATGCTCACAGTCATGTTTTGGATGGAACACAGGGCCCCTAGTGAAGGAGCTAGAGAAAGTACCCAAGCAGCTAAAGGGGTCTGCAACCCTATAGGAGAAATAACAATATGAACTAACCAGTAACCCCCGCTGCAGAGCTGTGTCTCTAGTTGCCTATGTAGCAGAGGATGGCCTAGTTTGCCATCAATGGGAGGAGAGGCCCTTGGTCTTTCGAAGATCATATGCCCCAGTACCAGGGCCAGGGCCAGGAAGCAGGAGTGTGTAGGTTGGGGAGCAGGGTGGGGGGAGGGCATAGGGGGCTTTGGGGATACCATTTGAAATGTAAACGAAGAAAATAGCTAACAAAAAAATGCCTTTAAAAAAAGCCACTAATACAGCTTCACATTTTCCAACAGCGGTGGACATACAGATTTGCCAAGGAGGATGCAATTGACTATGCCATTGAATATGGCAATCGGAGCTCTCTATGCTAAGCTGTTAAACTATATGCTTTATTGTCTCCCCCATGTGTGGAAGGTAGAAACAGGCATATGAGCTGTCTAGACTGACTTGGTGACATGATTTAG
Seq C2 exon
TTTTTCAGTTCTACCAGCTGTCTAATATCCAGCAAGACAGCATCACTGAAAAGGATGAAAAGCTGGGGAACATGTCCCGACAGCTACAGTCTCTCCAGGCCCAGAACAGAAAACTCATTGAAACTCTACAGCAGGTAGCCGTAAAACTGTGCCGTGAACTTTACAACAAAAGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033082-Clec1a:NM_175526:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF043759=HemX=FE(23.4=100),PF041569=IncA=PU(30.1=73.5),PF061036=DUF948=PU(20.0=38.2)
A:
NA
C2:
PF043759=HemX=FE(41.8=100),PF041569=IncA=PD(68.7=95.0),PF061036=DUF948=PD(78.5=85.0)
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:
GGGACACCCTCTTCAGTTTGG
R:
TCCACTTTTGTTGTAAAGTTCACGG
Band lengths:
270-1890
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: