MmuINT0076163 @ mm9
Intron Retention
Gene
ENSMUSG00000026874 | Hc
Description
hemolytic complement [Source:MGI Symbol;Acc:MGI:96031]
Coordinates
chr2:34840218-34841862:-
Coord C1 exon
chr2:34841779-34841862
Coord A exon
chr2:34840354-34841778
Coord C2 exon
chr2:34840218-34840353
Length
1425 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GCCTTGTGTGTATGTCTCAGGGG
3' ss Score
8.37
Exon sequences
Seq C1 exon
CTTATAAAGTCAGGATCACATCAGCCACTGAAGAAAATGTTTTTGTCAAGTACACTGCGACTCTTCTGGTCACTTACAAAACAG
Seq A exon
GTAAGAACTACTCCTTCCCTTGAATACTTGGACCAGGCACCGTGTGAACCAGGCGTTGGATCGGGCACAGGGGAGATGACTTAACTACAGGAGCAGAGGTCTCACCTTCACGAAGCTTCTAATTCCCGTGAAATGCTCTTATCGCAGACTTCAGCAAATGCTCTGTATGTCAGCAAATGACATAGCCACCTTTTGCCTTCAGCGTTTCACTTTAAGTTATTTAAAGCACCCTTTTAAAATGTGTGTTATTTAAGCATCACATTTATTCGTGTGTGCATGTGCACGTATCGATGATATGCATGGGGGAGGTCAGAGGGCAACTTGCAGGAGGTGGCTTTCTCCTTCCGCCACATGGCACCTGGGCATTGGGCTCAGCTCATCCCGCTTGGAATCAAGTAACTTTCCCTGCTGGGCCATCTTGCTGACCCTTAAAACACATTTAAAATGGAATAAGTGATTTATTAAATAGCTTAAGCTTATTGTCCTATTGATATCTTCCAAACAACTAATCTCCCATTTCAGCGACTCTGAATTCTCCAGTCGGTGGGATTATAAGTCTGAATCTTAATACATTTTTAGTGACATCTATCTTCTTGGTAAATTCTGTCAAGAATTTCAAGTCAGAAAACACTTTGTTCTTGGAGAGAGACAGAGGGGGAGAGGAGGAGGGAGGGGAGGGGGAGGGGGAGGGAAGATTAGATTGAGGTATACAGATATAAAAAAAGGGGGGGCTAGGGTATAGTGCTAGAATGCTTACCTAATCTGTTCAAGACCCCAAATTCAATGTATGTTACTATTACACAGAAGTGAACAAGGGGGGCTTAGCTAATACTCTGAGACATGAAAGTAGGCTTAAACAAAGGGGAAACTCGACAGGTCAAACATGGGGAAGACTGTGTTCTGGGCAGAAGTATCAAGTCATAGCTACTTCTGAGTCCCTTAGGAGTCCCAGAGTTATCTTCCCTTAAATTTGTAATCCCTTCACACCATATGCCTTTCTAGAAAGCTGACCTGTGTCAGCTACCAAATACTTTGTTAATTGGGTACATAAGTAATGCACAGCTCTTAAACAGTGGTCCTGAGGCTTTGAGAGGCTATACCACTCCGTGGCTCTTGCTTTGCTCTTGGCACTTTTCCTGTGGTATCGCCCATTCTCCCTAGTAGTTCTGCAGTAATGCCGAGTCAGCGTTCCGAGGAGAGGCTAAGGCCTTACTACAGGGAGTTTAAGTCAGTGGCCAGAGCCACGCAGTGGGAACCAGCACTGCTGGGTTTTAACCCGGACAGTCTGGCTCCAGAGTCTCAGTCAACCACAGGAGTAGAACATCTTCAGCAATTTTCACCTCTCTGAGGATAGGAGCAGCTCGAGAGAGGTCATAACTAAAGATTAATGTGACTGTGATAAGCTGCCTTGTGTGTATGTCTCAG
Seq C2 exon
GGGAAGCTGCTGATGAGAATTCGGAGGTCACCTTCATTAAAAAGATGAGCTGTACCAATGCCAACCTGGTGAAAGGGAAGCAGTATTTAATCATGGGCAAAGAGGTTCTGCAGATCAAACACAATTTCAGTTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026874-Hc:NM_010406:39
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:
PF0175916=NTR=FE(25.5=100)
A:
NA
C2:
PF0175916=NTR=FE(40.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGTCAGGATCACATCAGCCAC
R:
TGAAACTGAAATTGTGTTTGATCTGC
Band lengths:
214-1639
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: