MmuINT0032381 @ mm9
Intron Retention
Gene
ENSMUSG00000016493 | Cd46
Description
CD46 antigen, complement regulatory protein [Source:MGI Symbol;Acc:MGI:1203290]
Coordinates
chr1:196909742-196911629:-
Coord C1 exon
chr1:196911527-196911629
Coord A exon
chr1:196909831-196911526
Coord C2 exon
chr1:196909742-196909830
Length
1696 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
ACTTTTTCTTTGCTATCTAGTTA
3' ss Score
7.07
Exon sequences
Seq C1 exon
AAGTTCAATGTACTATGTTACAAGACCCTTCATTTGGCAAAGTATACTACATAGATGGCAGCTTTTCATGGGGTGCTCGAGCTAAATTTACTTGTATGGAAGG
Seq A exon
GTAAGTTGCTCATTATGGGAAATAAGGTAAATGTTCCTGATTCCATTGTTGTACTTCTGTTGTTAAGCATTCAAATAAATATACTTTCATTTTGCTTCTAAATGACAAACCGTGCCCCTAACCAAACAATATTTGGGTCCTTTATAGTGGTAGGAGAGATATTTAATAAATAAAGAAATTGGAGGAAAACAAGTGTGTATAATACTTGCTATATCTAATAAAAAGTCTATGATAAACATTAAGAATGGGAAAATCTTCCAGGGATAATGATTCATACTTGTAATTTCAGCACTCAGGAGGATGAGACAGACGGGTCTCTATGAGTTTGAGGGTAGTCTGGGACACACAGTCAGTTCCAGGCCAGTCCGGGATACAGATCCAAAGAGGGTGGGTAATTATGGTGACCTTATCCTTCACAGTCAAGTATATTTACTGCCAATTCAAGGTTGAAGTAGGGTTATAATGAACTTGAGGTAGAATTACTAACCAAAGGAGAATTCTGGAAGGTATTAGCAAGTCAAAAATTAAGATGATTCATCTTAACCACCATATGACAGGATATTTCAGTTGGGAAACATTATTTTCTAGACTGCTACTTAACCTGAACCATCTCAAAAGGAGACATTAGCCACTGAGTAACAGTTTTTATTCTCTAGGACTCTCTCAGAAGTAATTACAAGTCTTGGGGAAAGTAGGCTATGACTATCTGTAAACAGAGTTTCATTGATAATTTTTAAACTATCACGTAAAAACACATTCAGTTAAAGCTATGTGGAGGAAATTTTCTAGGCATGTTTAGGGAACCAAACATTCAGGGCATAAATCTTTCTCAAAGACACTGTAATCTTGTTGAGAAATCCAGTAGATACAGAAGCTACTGAACAAAATAACAAAAAAAATGCCAGATAAGAATACTTCATGATGGTGACATGGGGGTCCACAATAACAATCTGTGCATTTAAATCATGGGAGACTTGATAGGATTAATACTGATCTGTTTCTAGGAAGACATTATGATCATAATATTAGTAAGAGTTAACATTATTTTTACTTGCTGTGTGCCAGACTCTAATTTATCTAATTCTCTTGAACAATACTATGAAATCTTTGATTTAATTTTGTTTGTTTTGTTTTTGTTTTGTTTTGTTTTTACAAGAGGTCTCACTATGTATGCCTGGAGCTTGCTGTGTATACTAAACTGGCTTTGAACTCACAGAAACATGCATGCCTCTACCTCCTGGGTTCTAGGATTAAACTTGTATGCCACCACACCTATCTATTTGTATGTTTTTAGTTGAGGAACAAAAGAAACTTTAAATGGTTTGCCAAAGGTTAAGTGGCCAGCAGTCATGGAGCTAGGACGAGAACCCAGACAGACCTTCCTAAGGAATCCTTTCTCTGCTTCATCCTCTCAGAGCAGAATGGATGAGCAAAGGCTCAGATGCATACTTATATGATTGTAGGAGATAGCAAAGATTCCAGTTCACATCAGATGTTCCTAGATATAACAGTGTGTGTTCACAAACTATTCATCTGATTAAAGCTTATTTTGATTTGTTTAATTCTTTCATTATACCTTAAAAAACCTGTCCCTCAAACTACTATATTAAGGGGAAGTCAATTAAAACTGTCCTTCATTATTATGTGTATCTTACCAGCTACCAAAGAAAATAGTAACTTTTTCTTTGCTATCTAG
Seq C2 exon
TTATTACGTAGTTGGTATGTCAGTTCTACACTGTGTGCTTAAAGGTGATGATGAAGCATACTGGAATGGCTATCCCCCACATTGTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016493-Cd46:NM_010778:3
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:
PF0008415=Sushi=PU(51.7=88.6)
A:
NA
C2:
PF0008415=Sushi=PD(46.7=90.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GTTCAATGTACTATGTTACAAGACCC
R:
TTTCACAATGTGGGGGATAGCC
Band lengths:
190-1886
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: