MmuINT1007277 @ mm10
Intron Retention
Gene
ENSMUSG00000029915 | Clec5a
Description
C-type lectin domain family 5, member a [Source:MGI Symbol;Acc:MGI:1345151]
Coordinates
chr6:40582235-40584430:-
Coord C1 exon
chr6:40584356-40584430
Coord A exon
chr6:40582295-40584355
Coord C2 exon
chr6:40582235-40582294
Length
2061 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATC
5' ss Score
4.14
3' ss Seq
AGGATTTCTTTTCATTTCAGTCT
3' ss Score
6.1
Exon sequences
Seq C1 exon
TCCCACAGGTTTTTGGCAAAAGTAATGATGGCTTCGTCCCCACGGAGAGCTACGGAACCACTAGTGTGCAGAATG
Seq A exon
GTAATCTCACTAGCATCCAGCTTCTATGTCCTGAATTCTAACAGTTCCTATGAATTTGTATACAGATGCTACACCAAGGTCCTGTTCTCCTTTACAAGTGTGAAAATGAACAGAAAACTCATTGATCACTGTATCTTCCTGATTTTTCCTCTATTGGTACTAAGGATCAAATTCAGGGCCTTGCTCATAGGAAGCACAAAGTCTAGTACTGAACTACACCCACCTCAACCCCTGTATGGAATTTATGATCCTCAGTTTTCCTCCTGGGCTTGAGAACGATTTGTGTGGGACTACTATAATATATTGTAAGTGAATTTCATGGATTCTTACAAGGAATTGTTACAAACAAAATTCTATCCAGGTGTGGTGGCCCAAACCTTTAATCCCAGCACTCAAGAGGCGAAGGCAGGTAGATCTCTGAGTTTAAGGCCAGCCTGGTCTAAAGAGTGAGTTCCGCTGGGAGTGGTGGCGCAGGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTAAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTGGAAAATAGAAAAGAAACAAAATTCTAGCATTAGAAGATGGTTCACCTGGTAAAGTGAATACTTGAATGAGGACCTGAGCATATATCTCCAGCACACAAGTGAAAGTCAAGTCTTTGCCATGTGTGTCTGTAACAGCAAGACTGGTGGATGGAGACAGAGCTGGGAGAATCCCTGGTACTCGTTGGCCAGTCCGTGTAGTTGAATTAATGAACTCCAGTTTCATAAAGAGATCCTGCCTTAATACATGAGATGGACAAAGATTGAAGAAGGCACCCAGTGTCAGTCACTGGTCCCCTCACACATGAATGTAAACACATCTTCACACACATGTACATACATCCACTCAGGCATGTACATACAATGCATACACACAAACACATGCACATACATGCTCACACACAGACACAAACACACACACACACACACAGAGACACACACACACACACAAAAGAATTCATGTTCCACAAAAAAAGGGGGGCTAGGCATCATTTTGTGAACTAAAAATTATGCTAGACTCACCATGGGATAAGAATAAAAACAGATTGGTAATCAAGCCTCATTTATAACACAAAAAATTTAATGCCACATGTTTCACATACAGAGGCCATGGGACTTCTAATCCTACCTCTCTTCTATTTGATTTATTCATTTTTATGTGTGTGAATGATTTATCCTCATGTATATATGTGCACCATGTGCATGGGCTGCCTATGGTTGCCAGGACACTGTATCCTCTGGAACCAAAGTTACAAGTGTTGTGAGCCAACATGGGGATGCTGGGAACTATGCCATCGCTCCAGCCCCAAGCCCACTCTTCATGCAGCTTTCTGCAAGGACTCCCTGCCACTGCCTCTTAAGACATGGGCTACAATTGACATCTTTAGGACCAAAGAAGAAATTTCTAACTTATCAAAAATGGACTATTATGATATCAAAGTCTCTGAGCTAAGGAGTACAATAAAATATGAATGCTCATGCCTGTTTTAACAATAAGAGTTTAAGTGACTAGTTGGCATCTGGGTAAATGAAAGTAGTCTTAAGCATAAAGAACAAATAACCAGGGCCCCTGAGCAGACTTTCAATAGCCTGTGGAGCCACTGAAACTGTCTGCTCAGACAGCTGGTGCATCCAAGAGAAAGGAGCCCCTTAGGGGCCATTAATCTCCACAGTTTGTATTTTAAAGACAGTATTTTTGACAATTCTAGTTCAGAGTGGTCAAGGCCCTTTTCCTCTCCATAGTATCTCTTTCAGCTTCTTCTTCTCTTCTTCCCTCCTTCTTTCTGCACCTTCCCATCTCAAATTTCCCTGCCCCAAATAGGATTTTCATCAAGGATAGTGTTTTTTCTTTCTACCTCTGGATCGTCTAGAATATCAGGGGTGTTTAGAAACAAATACTCAAAATTCAGCAGCCCACAGCCTAATGACTGCTGTGTTCACTATATAGTAGCCATCAGGATTTCTTTTCATTTCAG
Seq C2 exon
TCTCACAGATCTTTGGGAGAAATGACGAAAGTACCATGCCTACAAGGAGCTATGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029915:ENSMUST00000129948:3
Average complexity
IR
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:
NO
A:
NA
C2:
NO
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:
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
- 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