MmuINT0076146 @ mm9
Intron Retention
Gene
ENSMUSG00000026874 | Hc
Description
hemolytic complement [Source:MGI Symbol;Acc:MGI:96031]
Coordinates
chr2:34868995-34870672:-
Coord C1 exon
chr2:34870583-34870672
Coord A exon
chr2:34869208-34870582
Coord C2 exon
chr2:34868995-34869207
Length
1375 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGGGTCTCTTTTTCTTTCAGGAC
3' ss Score
11.86
Exon sequences
Seq C1 exon
GTATTGTTAACAGACGAAAGGAATTCCCATACAGGATCCCATTAGATTTGGTCCCCAAGACCAAAGTTGAAAGGATTTTGAGTGTCAAAG
Seq A exon
GTAAGTTAATAAATCCAACTTCTGGGCCAGCTGGTAGAGTGGCTGCCTAGCATGCATGAAGCCCTCGATACAGTGGTGCCTGCCCTAATCCCAGCCGTGGGAGACAGAAGCAGGAAGATCAGAAACGGAAGGTCAGCCACAGCTACATAGTGAGGTGAAGCTAATCTGAGTAGCCCTGTCTGAAAAACAGATAAATAAATAGATTTTTTAAAAAAATTCTTTTTTCACTCTGTGCTTCAACCAAAATCAAACATATTCGTGATTACTCTTTATTTCTCTTCATCTCCACACACAGGTTGGCTTATGACAGAACTCTGTCTTCCATTTTCCTTGTCTTCAAACACTTGGTTACGTTTCTAACTCCCTTCCCCTAATGTATTTGGAAATTACCCTGTGAGGATAGGGTACCTGTTGTGAGCCCAGGACATCTCTAGAATGGGGTACAGCTGTTTCACACTTCACTTCCAGTGGTCTCAGCAGTCAGTCCACTAAAGACTTTGCGACCTGCAAATGGCCTTGCGGTACCAGCTTTCCGTCCAAGCTTAAGTCCTGGAGTGGTCAGGCTTGCTTAGCCCATTTGTGTAGCTACAATGAAACACCAGAGTCTAGGCAGTTTATAAAGAACAGGCTCCTATTCTGGAGTTTTTCAAGTCCAAGACCAAGGTAATAGAGAGGCTGGCAAAGGTTGTTCCTGTTTTTACAGCTGCTGTCTTAGTGGGTCACCCTCACATGGCTAAAGTATAGAAGAGTAAAATGTCAAAGGGTAAATGGCTCTCCACACCCTCCCAAAAAGCTTGCCCTCTTACACTACCACCGGTGTGGGTTAGGCTGCAGCAGATGGAGGGTCAGAGGTATTCAAACCAGAGCAGGGATTCTCTGCCCTCCGGGGTGTTTGCCAGAGGGGCATCATTCTTTGCAGTAAGGTAACACATCACTAACAGGACAGAATGACCTGCCTGCATTTTATCTTGGAACCACAGAGTTTCAGACCTGGAAAGGGCCTTTTTGATCACGTGCGATCTTGACATTAGACTTATAAGAAGTTGGCTTGCCCAGGGTTGCACAGTGTCACTATAGACTGGGGGGCCAGCGCCTTTTCCATTCAGGCTCCTTTGCCCTACTTCACCTGAGGATTGGTCAGTGTGGGTTATGACGTCAGCACCTAACTATGCAGCCATTTGTCTACCACATTACCTTATCTGCCACCAAGACTTTATGCTGCTAATCAAATCCAGCTTGCTCCCCTGATTTCTGGGACACAGGTAAACTGCTTATATTAAAAGGGGGGAAAGACGTTGGTCATTTCCTCTTCAGAATACACTGTTGGGAGCAGATAGCGGGTGGTTACGTCCACTTGGGTCTCTTTTTCTTTCAG
Seq C2 exon
GACTGCTTGTAGGGGAGTTCTTGTCCACGGTTCTGAGTAAGGAAGGCATCAACATCCTAACCCACCTCCCCAAGGGCAGTGCAGAGGCAGAGCTCATGAGCATAGCTCCGGTGTTCTATGTTTTCCACTACCTGGAAGCAGGAAACCATTGGAATATTTTCTATCCTGATACACTGAGTAAAAGACAGAGCCTGGAGAAAAAAATAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026874-Hc:NM_010406:23
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:
NO
A:
NA
C2:
PF076789=A2M_comp=PU(0.4=1.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTAACAGACGAAAGGAATTCCCA
R:
TTTCTCCAGGCTCTGTCTTTT
Band lengths:
286-1661
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: