MmuINT0037161 @ mm10
Intron Retention
Gene
ENSMUSG00000033082 | Clec1a
Description
C-type lectin domain family 1, member a [Source:MGI Symbol;Acc:MGI:2444151]
Coordinates
chr6:129432122-129435293:-
Coord C1 exon
chr6:129435117-129435293
Coord A exon
chr6:129432274-129435116
Coord C2 exon
chr6:129432122-129432273
Length
2843 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGTTCTTTTTTTCTTCCAAGGAC
3' ss Score
9.27
Exon sequences
Seq C1 exon
TTTTTCAGTTCTACCAGCTGTCTAATATCCAGCAAGACAGCATCACTGAAAAGGATGAAAAGCTGGGGAACATGTCCCGACAGCTACAGTCTCTCCAGGCCCAGAACAGAAAACTCATTGAAACTCTACAGCAGGTAGCCGTAAAACTGTGCCGTGAACTTTACAACAAAAGTGGAG
Seq A exon
GTGAGCATGTCCCTGTCACTCTGGCCTCTAGAAATTGTTCTATCTAAACCCGAATTTCCCATCAGGGTAACTAGAATCGTGTATTTCTTTAGAAGTACTTTTCCTGACATCTCAATAAACAGTTTGAGCTGCATAATCATGGTCAGACATTGGGTTATAATTGCTTATATGCATCTTTATCATGGTGCAGGAAGGGATTCTTCAAATGTGAGCACTTAAAGCATAGTAGTCCATTTAGAGTAACCAGAATAGCACCATCAGCAACTAAACACAGGACTATGCCTCAGTTACCTTGACACAGAGTAATCCAGCACAGGGAAAAAGTTATAACTACAATTTTCAAACTTTTAGACTCACTCAGGAATTATTTCAAAATTTAGAAAACCTAAAATAAATTACAGTTGTTTTAGTTCACTCATGGCGTGTTTCTCAAAAATATGTATCTTACAAAGGATCAAGGGTAATGAGAATGACAATGGGCAAACCAAAGCTATCACTGATGATAACTGTAAACTCACTTCAGTGTCCCCTTAAACAGCCACCATCTTTCTATTCCCCTCTTGAAAGTCGCATCACAGTATACTACATTCACGTCAGCCCTCTCTTCGTCCCCCTCCACCACACAAGCATAGGAAACAACCTGCAGTTCGCAGTCCTAACTGGTTTCTCTTTTGGAAACTGAAGTACCACAATTTCATCATCTCCTCCCACACCACTTCCCCATTAGCAGATGAGTGAGTGATTTTCTCAGTAAACAGTGTCTCAAGGCTTACTTCTCTAAGTGATTGTTTTCCACATGACTAGAGACTTCATTTACTCTAATTCTCTCTTTTCTTGTTTCCCTGACAACCCAGTGGACTTTTCTTTCTCTTTGTCGGATTCTAAATCATCAAAGAAATAATTCTCATCTAGGTGGCTCAAAACAAAACAAAACAAAATAAAAACAAAAACAAAAACAAAAGGCAAGTGAGAAAAAATGTATGCAAATAAACTATAAACAATTTAAATATAAAGAGATATAAAAAGGTAGAAACTAGGAATGAGTGATCTAATCTGTGAGTTCAATATGTAAGAAAGTCTGGGTCACAAATATAAACAAATATTCTATATACCCATAATCTATTGAAAAAAACTAATAAAAAATGACCATGTATTTTTGGATGATGAAGTTTTCCTGCATCATTAAAATAATTGATCTGCCTTAGTGTGTTGCCTTGCTGAACCTTTTTGCTGCATTGACCATGTTGTAGCTATTGTCACATGAAGCTTCCCACACCGACAGAGACTTTATAGGAGGAGCTCACAGGAAATCAGCCATGTTCAGCTTGGGAACTCTACGGCCAGTGTTTCACTAGCTCTACATGTCAAAAGAAAAATATCTGGAAGCAATACTTTTTCCTGGCACATTTTCATCTCGCTGATCAAAAGTATACATCTCCCCTGAAACACATCCACATCGTCCACATTTACATGCATGTACTTATACCATTCATGGATGTGCTGTGTCCTGGGGAAATTTTATTTTTATCACAGGGTCATTTAGTAAATTCCTGTCTCAAAGCAAAAGTTAACAGAAAGCATGATCTATGTGGCTCAATCTGTAGCCTAGAGTAAACTGTGTTCAAATCTCCATCCCCTCCAGAATAAAATAGTGGTGCAAGCACACACACACACACACACACACATACACACACATACACACACACACACATACACACACACATACACACACACACACACACACACACAGACTTAGATGTAGGTTCCTGACTCTCAGGCCAAAGTCCAGACACCCATACCATCATATTCATGACACTACTACTCATCCATGTAAAATGTACAAATGTACATATGTGTTTCATCTTACTCTCAGCCCTTTGTACTTTTTTGTTTGGTTTGGAAGTGCCCACTGTCTCTCAACACACACATAACTTATACAGCATGGGTACAAGGGACTTACATCTGAAAACACCTGACAGACAGCTTCAAGAGGGGGAAGATTAACTTAGGTTCCAGCTTCAGACATGTCAGCTTACAATGGTGGTGAAGGCCACTGTGGGGCAGCTTCCACCAGGCCATCCTTGAGGCTAAGAAAAGAGTATGCACAAAAAGTGCTATGTGTGATGCAGCCCCAGTGACCAACTTCTCACTTAGCCGCTATTTCATCACTTGACATTAAAGCCTTCAGATTCAGAACCAATCAAGGAATCAGTCCATCAATGGTATCAAAGACATCTAGATCAATCATATGCTCAAAGCTCACCAGCTCAAAATTATGTCCCCAATGCTTATGAACCCACAGGGAGAATTTCATATCCGAATCATAGCATAGTCCTATGAACCACCTCATGAAGGGATATTCTGTCCACATTCTGCATAGCATAGGCAAGGAGGTTTTAGTCATTCATCATCAGATCCAACACTGCATGTAAATACTATCTGTTTCAATTTTTACTGAATGTTCTGCTTCGATCATAGGTCATTCTTGGTGTGGAGTGAGTAGCACAGTTGCTCACTCAAATATCTGAGACATATAAGTTACTTCTTGGAATGTTAAACACTGTTTATTTCCAAAAGTGGAAACATCAGATCCATGCAGAAGGGGTTGGAAAGATGGCTCAGCAGTTAAGAGCACTGAGTGCTCTTTCAAGGGTCCTAAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCACCCGTAATGAGATCTGATGCCCTCTTCTGGTGTGTCTAAAGACAGCTACAGTGTACTTAAGATATAATAATAAATAAATCTTAAAAAAAAAAAAAGGTCCATGCAGAGATAACTAACCAAACTGTGGTGTTCTTTTTTTCTTCCAAG
Seq C2 exon
GACATAGATGCAGTCCTTGCCCAGAAAAATGGAAGTGGTATGGAGACAAATGTTACCAGTTCTATAAAGAAAGTAAGAACTGGCAGAGTTGTGAATACTTCTGCCTGGCTGACAATGCCACCATGCTGAAGATAAGCACACAGGAAGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033082:ENSMUST00000203162:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043759=HemX=FE(42.8=100),PF041569=IncA=PD(68.3=93.3)
A:
NA
C2:
PF043759=HemX=PD(21.7=58.8),PF0005916=Lectin_C=PU(25.5=52.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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