MmuINT0035274 @ mm9
Intron Retention
Gene
ENSMUSG00000026365 | Cfh
Description
complement component factor h [Source:MGI Symbol;Acc:MGI:88385]
Coordinates
chr1:141997385-141998335:-
Coord C1 exon
chr1:141998162-141998335
Coord A exon
chr1:141997562-141998161
Coord C2 exon
chr1:141997385-141997561
Length
600 bp
Sequences
Splice sites
5' ss Seq
TAAGTATAG
5' ss Score
-4.2
3' ss Seq
TTCAAACTTTTTTTTTTCAGAAA
3' ss Score
9.29
Exon sequences
Seq C1 exon
GACTTCCTTGTGGACCTCCACCTTCAATTCCTCTTGGTACTGTTTCTCTTGAGCTAGAGAGTTACCAACATGGGGAAGAGGTTACATACCATTGTTCTACAGGCTTTGGAATTGATGGACCAGCATTTATTATATGCGAAGGAGGAAAGTGGTCTGACCCACCAAAATGCATAA
Seq A exon
GTATAGTTTTATTATCATTCTTTGTGTAGTGTATAATTTAATTCAATCTCTATGTGGCACATTTAAGAAATGAAGCCTTAATTCTAGCATATAAGAAGGTTCTACTGCATAGTTCTGGATGCTGGAAGTCAAATACAGTACTGGTAAAAACATAGTTTTATCTTTCAGCCTAACTAAATTGTTTTGTTCCATGTAGTCTGAGATATCAGAATCCTCAGATTTCCATAACACACAAGCTCCTCTAAACAGGGTCATCACTGCAATGACAGTTTTAGCAACAATGCTACTGCAATTACATATGCTCTAAATTTTGAAATAATAATCATGAGTAATTTACATTTGATAAAACAAAAGTAGAAATACTCTATAAGCATGAAAAATGTGAGATAAAATTGAATGTAAAATCTCAGGAATTCTGATCATCAGCGTTCTATATCTACCTTATTCATTTTCATAAGTATGGAAGAATTCAATATAACTAAGTCAAAATAGGAAAACTACTACTATATTTATTTTTCTCTATGAAGCTACCTATTGTTCCATATATTTTATATTCTGCAACTTTCTGAAAACATATATGTTCAAACTTTTTTTTTTCAG
Seq C2 exon
AAACGGATTGTGACGTTTTACCCACAGTTAAAAATGCCATAATAAGAGGAAAGAGCAAAAAATCATATAGGACAGGAGAACAAGTGACATTCAGATGTCAATCTCCTTATCAAATGAATGGCTCAGACACTGTGACATGTGTTAATAGTCGGTGGATTGGACAGCCAGTATGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026365-Cfh:NM_009888:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTCCTTGTGGACCTCCA
R:
GCATACTGGCTGTCCAATCCA
Band lengths:
347-947
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: