MmuINT0037192 @ mm9
Intron Retention
Gene
ENSMUSG00000030365 | Clec2i
Description
C-type lectin domain family 2, member i [Source:MGI Symbol;Acc:MGI:2136650]
Coordinates
chr6:128845345-128846866:+
Coord C1 exon
chr6:128845345-128845451
Coord A exon
chr6:128845452-128846429
Coord C2 exon
chr6:128846430-128846866
Length
978 bp
Sequences
Splice sites
5' ss Seq
CATGTATAT
5' ss Score
-0.35
3' ss Seq
TGTTTTTCGTTTCTTTTCAGGAA
3' ss Score
12.24
Exon sequences
Seq C1 exon
ATTTTCCTAAAGAGATTCAAGGGGGATTTTGATTGCTGGATTGGCCTGCACAGAGAGTCGTCAGAGCACCCTTGGAAGTGGACAAACAACACTGAGTATAACAACAT
Seq A exon
GTATATTTTCACAATGTTTTTCCTTCTATTATGTTCCTGTGTTGTGATATATGTGTGTCGTGGCTATGAGAGATGAAAGTCAATGTCATGTCAAGCCAACTGAAAAAGGAAGGAAGAAAAAAAAATGAACCCTTGTGCTGGAGGTGTGGCTCAGGGGCAGAGAGTATGTATAAATGCAACAGCCAATCCCCAGAAAGCTCTACAAACTCACAAATTTAAATACTTCAGAGGTTTTCCTGTTTATTGACCGTCATTTTCAAAACCTTTGCATCATGTCATTTTACTCAAAATATTTACCATAACGATGGTGTCTGGGAGTAGCTATTGTTTGCTCTGGCTCCAACTTAAACATTTCTGTTGTTGATAAATGCCCTGTGAGGGATATAGACAGAGCCTCAGATGGCCAGTGGGGGCTCTGAGACCCTAGAAAGCCACTGCAGTATCTGCAAGCCTGAGATTCAGCTTTCCACTATTTGCATGGCTGCACCTGTTCAGGAAAGCAGAGACTCTAAGTACATTTGGAACCTCCTCTAAAGTCTTGTTATCATTGAGCACCCAAAGCAGTCCTTGGGTTTGAGCTGTTTTCCTGGGATGGTAAATCACAGACTCAGTCACATCCATCACTGAAGCCCTTAGAGCAATTTACTAAGTGGGCGTCCCCATATATAAAATGCCTAAAAACAGAATTGAAAATCACCCTTAGTCGTGTCACTCATGGCTGCGGTTCATTTGAACATGGCAGCAAGCACCAGCCCAATGCCTTGTACACACATTACAGGATTCACCATGGACAAATGACAAAGGAGTGGTGTTCAAATCCTGAGAATGTGAGACAGTAGGTATAAAACTAATGCAGATGACTCCTCAGGGACTTTTTGATTCATATTACCAAAAATCAGTGGAGACTGGCGAGATTTCATTGCAGGAGCAAATGCAGTTCTGGGCTCTGTAGGCTTACTGTTTTTCGTTTCTTTTCAG
Seq C2 exon
GAATCCCATCCTAGGAGTGGGAAGATATGCCTACCTGAGCAGCGATAGGATCAGCAGTTCGAGGAGCTATATAAATCGGATGTGGATCTGTAGCAAGCTCAACAACTATAACCTCCATTGCCAAACTCCTCCTGTCTAGCACTTACCAAGAGACTCTTCTTAGCCTGTTATCTATGGGTGCTACTTTTTCCCCTATGGTCCCACAGTGCTATCAAATGGGATTGAGAATATTTTTTAACATCACAAATGAAAACAATCGAGGCTAGAGAGATTGCTCAATAGTTAAGAGCACTGACTGCTCTTCTGCATGTTCCCAGTTCACATCTGAGCAACCACATGGTGTCTTACAAACATCTGTAATGACATCTCATGTCCTCTTCTGGGATGTGTGAAAACAGGTACACTATACTTACATATAGTAAATAAGTAAATCTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030365-Clec2i:NM_020257:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(36.5=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.3=68.1)
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:
GATTGGCCTGCACAGAGAGTC
R:
TGAGCAATCTCTCTAGCCTCGA
Band lengths:
347-1325
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: