MmuINT0037160 @ mm10
Intron Retention
Gene
ENSMUSG00000033082 | Clec1a
Description
C-type lectin domain family 1, member a [Source:MGI Symbol;Acc:MGI:2444151]
Coordinates
chr6:129435117-129437012:-
Coord C1 exon
chr6:129436914-129437012
Coord A exon
chr6:129435294-129436913
Coord C2 exon
chr6:129435117-129435293
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:ENSMUST00000203162:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.169 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF043759=HemX=FE(23.9=100),PF041569=IncA=PU(30.5=73.5)
A:
NA
C2:
PF043759=HemX=FE(42.8=100),PF041569=IncA=PD(68.3=93.3)
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
- 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