MmuINT0037272 @ mm9
Intron Retention
Gene
ENSMUSG00000079293 | Clec7a
Description
C-type lectin domain family 7, member a [Source:MGI Symbol;Acc:MGI:1861431]
Coordinates
chr6:129415473-129417686:-
Coord C1 exon
chr6:129417535-129417686
Coord A exon
chr6:129415592-129417534
Coord C2 exon
chr6:129415473-129415591
Length
1943 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGC
5' ss Score
3.93
3' ss Seq
GTATTTTTGTTTTACTACAGGAG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GAGGTTTTTCTCAGCCTTGCCTTCCTAATTGGATCATGCATGGGAAGAGCTGTTACCTATTTAGCTTCTCAGGAAATTCCTGGTATGGAAGTAAGAGACACTGCTCCCAGCTAGGTGCTCATCTACTGAAGATAGACAACTCAAAAGAATTT
Seq A exon
GTAAGCACATACTTCTATAATTACCTCTGGTTTACATTCATCTGGGCTAGAGAGATTCTTGCACTAACAATGTTCATATCATCATTTGGTATAACTGCAAAATTATTCAGTACATTACATAATGCATGGTTTTATTTTTTATTAATTGATTTGAAAAGGATTCACATTTTACTTTAAAATAAGCAATTTTGGGGCTTGCCAAGTAGCACTTGGCACTAAGCTTGACCTGAATTTGTTTCTAGAACCCACATAATAGAAGGGGAAAAACCGACTCTTACAAATTGCCCTCTGACCTCCACATGAGCACTGTGGCATGCCACACAACACACATGCACAAAAGAATGAAAATGAAAATGAAAATGTTAAAGTAAATACGTTAAAACAAACTTTATGATGGTTCGGATGTTGTGGTAAGGGCGCTTCATGCTTGTATATGTGTACTTCAATTTTCAAATTTGAAGTATAGGAGAAAAACTGCCCATTTGTTACTTTAATATCAAGAAAGATCAGCAATGACAATCAACATTTATGAATTGTTTGGTCTTGTTAAAATACTGAGGAAGGCAAAGAGCTGGTTTTATTTGATTATTTTGTTTTGTGTTATTTTTGTTGTTTAGTTTTGATACGTACTTTCCATCTTAGCTCAGACAGATCCAGACAAGAAATTCCTTCTAAGTGACAAAGAGGATTAAAAAGTAACCCTTCTATATATAGTTGAAAAGAAAAACAACAGTTCTGAAAAGTCAAACATCAGATAAAATAACAAATAAGCTGAAAGTTTAATAATTTAAACTTAGATAGTTTAAGTTTAATAAGCATCCTTATTAACAAGAAATTGTACAGAATCAGGAGAACTTACAATACATGTTGAAGGAAAAGTGGGTGAGAACTACAGAAAGCATCCCTCAATACAGTTCCAATCTGCACACTCTATTCTGTCTTCACTACTCTGTTTTTATCTATCTGTGACTCCGTACCCAATAGCTGTAGTTCCTGTGAAAGTTAATGAAAGCAGGAATACAGACAAGGAAGAGGATCCCATTAGAAATTCACCTGGCCTTTGATATCAACCTGTGATTGGCAAAGAATCATCCTATTTTTGTGACCAATTCAAGAGTCTTGGATTATTTTAACCATAAAACATGCAGTGCAGGGCTGAGGATGTAGATCTGTAGAAGAGAGTTTACCTGACACCTGCCAGGCTCTGGGTCTCTTCTACAGCATTATTTTCCTTGGTAAAGCTATTATGAGTTTATGTTTGCTACTTGTACAAAAAACAAATGGCCCATTTCCCACGAAGCTGCTTGGGAGCTGGGCACTGCTGGATTTTGTGTAGTTTGTTAATTGAGGTAGAATATTGATAATTTAAGCCTATTTTCCCCCTTTAGTTTGTGTGAGAGCTTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTATATGTATGTATGTATGCATGCATGTATGTTTGCACACTGAACCTAGAGAGATAGGCTTACAACCACCCAACTCCAGGACTCTCCTGTCTTCAATCCCTACCATACAGGAGTTAAAGGCATGTATGGATGCACCTGACATTTTAACATGGATATTGGGAACTCAAATCGAGGTCCTCATGTGTTTGCAGCAAGCATTCTTACCCACTGAGCCATCTCCCTAGCTCACATCTTTATTAATGAATCTATTCTTGATGGAAAAATTAAAAATAACTCTAAAACACCTCTCTAGACATTCAACGATATTCAGTGATTGACAGTCCTCTCTAGATTGTCACCTTATGTGAACGTCCTTCTGTAAAAGGATTCATTCCGCCCTGGATGCCTATAGCATTGTTTTAGGATCCCCCTGATGTATGTTTGTATTTTTGTTTTACTACAG
Seq C2 exon
GAGTTCATTGAAAGCCAAACATCGTCTCACCGTATTAATGCATTTTGGATAGGCCTTTCCCGCAATCAGAGTGAAGGGCCATGGTTCTGGGAGGATGGATCAGCATTCTTCCCCAACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079293-Clec7a:NM_020008:4
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:
PF0005916=Lectin_C=PU(25.2=52.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GAGGTTTTTCTCAGCCTTGCCT
R:
AGTTGGGGAAGAATGCTGATCC
Band lengths:
270-2213
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: