MmuINT0076139 @ mm9
Intron Retention
Gene
ENSMUSG00000026874 | Hc
Description
hemolytic complement [Source:MGI Symbol;Acc:MGI:96031]
Coordinates
chr2:34882034-34883718:-
Coord C1 exon
chr2:34883521-34883718
Coord A exon
chr2:34882125-34883520
Coord C2 exon
chr2:34882034-34882124
Length
1396 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
AACTAAATATATTTCTACAGACA
3' ss Score
5.85
Exon sequences
Seq C1 exon
CTGCTAAGTACAAACATAGTGTGCCAAAGAAATGCTGCTATGACGGAGCCCGAGTGAACTTCTACGAAACCTGTGAGGAGCGAGTGGCCCGGGTTACCATAGGCCCTCTCTGCATCAGGGCCTTCAACGAGTGCTGTACTATTGCGAACAAGATCCGAAAAGAAAGCCCCCATAAACCTGTCCAACTGGGAAGGATCC
Seq A exon
GTAAGTATGAGTTTTCCTACCAGAATCCTATCTGATATGGGAGATTCTATGTAAATTAGTGCTGCTAAGAAAGGTAGCTTTGATGCTTCAGTTAAAAACTAGAAGTGGAAAAGAGACCTCATCTGTATCCAAATACTTCCATTGTTCTTGGGGCCATTGGAATGGTACAGTGCCCAGTCAAGTTTGAATCCAGATCCAGTGTAACTTGAAAGCCAACTCATCCCCAAAGCTTGAGTGATGGTTTATCCTGTGAGCCTCAAGCAGGAACCTTTGCTTAGATAACTGTATTACATGCTTGAACTCTAAAATTCTATGTGACATCATACCCGTGACATCATACCTATTGAAAATGAAGTTTGTGCTTACACTGACCAAATACAGCAAAAGACTCCTAAAATGAGCAAGTCATTAAGTTTACTTGTGACTGGGGGACTTATTTCAGTTTCAGCCAACAATGTGACTTTTAGAATCACTTATGCATCAGTTTTAGGAAAAGAAGCAAAAGCGAAATGGCATCTACCCTTTTCTACTCTGTTTTGCTTAGCGGTGTATCTTAAGTGTTGTCTATCTCAATGGATACATTCTATAGACATAAATGGTACTGCAATTTAAAAAACATGCTATTAGGGATCATTTTGCCATAACTAGGTACATTAAGTTGCCTCCCAGTTTCTGCTTCTCCAAGTGTAATTCTGATGAATAATCTAGCACATATTTTTTTCACTGCCCAGTTTTTCAACTAGCATCCTCCAGTTGGCTTTAGCTACATGGTACCCACCATCGACGGCCCTTCCTCCCTGCTGAGTCTACTCCCCATTCTAGACAGCGTGGCCTCCCCACAGTCTCATCTGTGCAGCCACCAGCCTTCAGGGCTGTGTGTAGCTCCCTGCCTGACCTGGTCGGGAGTTGGGACAGGTCAGAGCCGGCTTGCTTAGCTCAGGGATCTAGGTCCATACTGCTAATGTCTGGGAGTCACTGTTTCCCATAGTGGAATCTGGTTTTTAGGTTTCTGAGACTCAGTGGTAAATCCACAGTCCCTATTAGTACATCTCAGATGGAGCAGAGATTCCATCCACCTTATTAGTGGAAATAGAAATTAACAAGCCAGAAATCACAGAAAACGTCCATGTTTTCTGATATAAATCTAACTGTCAAAATCACAAAATTATAAATAATTTTATAGACCCACTGATGTTGTGTAAAATCTCAGCTATCCCCTTGCTCTTTCGTCAGTATAGGAATATGCTAAGGTCTAAAAACTCAGTCATAAAACCATTAAGCAATGCCTTCCTGACCCCTTTTGGAGACAGGTAGGTCATAGATGAATGGTTTTACATAAAAATTCACCTGAAAGCAGAACTAATATTGGTTTCTATAACTAAATATATTTCTACAG
Seq C2 exon
ACATTAAGACCCTGTTACCAGTGATGAAGGCAGATATCCGAAGCTACTTTCCAGAGAGCTGGCTATGGGAAATTCATCGCGTTCCCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026874-Hc:NM_010406:17
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:
PF0182113=ANATO=WD(100=52.2)
A:
NA
C2:
PF0020717=A2M=PU(12.5=35.5)
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:
TGCTAAGTACAAACATAGTGTGCCA
R:
TTTGGGAACGCGATGAATTTCC
Band lengths:
286-1682
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: