MmuINT0077497 @ mm9
Intron Retention
Gene
ENSMUSG00000006611 | Hfe
Description
hemochromatosis [Source:MGI Symbol;Acc:MGI:109191]
Coordinates
chr13:23795710-23797603:-
Coord C1 exon
chr13:23797493-23797603
Coord A exon
chr13:23796296-23797492
Coord C2 exon
chr13:23795710-23796295
Length
1197 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTGGGTCTCTTGCCTTCCAGGAG
3' ss Score
9.92
Exon sequences
Seq C1 exon
AGCCCTTGCAATCTCAGGCCATGATTATCGGAATCATCAGTGGAGTCACCGTCTGTGCCATCTTCTTGGTTGGAATTCTGTTCCTAATCTTAAGGAAAAGGAAGGCTTCAG
Seq A exon
GTGAGTAGGAGCGTAATGAAGTATCATGGTGCCTCTTCCTCCAGGACACACTATTCCTGCAGAAAACGTGACCTCTGTAGGAAACCCTCACTGTGCTTTTTGTGTTGAAAGTGCCAGCCCATCTCTGGGAACGTTTTGTTTAATTTTGGTTTTCCCAGACAAGAAGTTCCTAATCCAGGAAACACCTTCTAGGCCCCTACTGTTGTGCAGGTGTTATTTAAGGTAGAGTAACGGGATTTCCGGTTGAGAAAGCCACTGGGTAAGTCCCAGAAGCTAAATCTAGTGTGGAATAGAATTCATGACAAGTATGTGTAGCTAAAGAAGACCCTGAGAACGTGGGGTGTCACTGGACGAAATACTCAACCTACATCCAGAAAGGATATGAAAAACGGGTATGGCTGTTTGTGACCCTAACATCAGCAAAAAGATTGCAATGAGTTAAAGGCCAGTCTGGATTGGTTCTGTTGTGAGACCCTCTCTTTGAATATAGACAAACAGATAGACAGACAGACACACACACACATACACACACCACAATGCTGAGTAGGAGAGTGTATTATTGGACCTTGTCCCTGACTTTGTGTGTTCCTCACAATGCATTCTTTTTCCCCCTCTCTGGGGATCTGTAGCATGGAACAAAACAAGAGGGAAACAGAAGCAAGCCTACATAGGCCTGTGGAACATTATGTTCTGATAGCTGGGGCACTGGTGAAGTCGCAAAAACACAAGGGAACGATGTGTTTGTGAGGAAGTGAGTTAGGTGACAAGAAAAGCCATTAGATAGCTACTAAACAGTTCCATACAGATGGTTATCTCTGGACTGTCTCAACCCGCCAACAGCCCAGGTAACAACACAGAGACTTTTTAGTAATTATGAAAGCTTGGCCTTAGCTTGGCAAACTCTCTACTAACTCATTTAAGTAAATCTGACCACCTGGCTCTGTCCAGCTACTGCCACTTGGTTCCTTACACAAGTACTGAACCCTGTACTCAAGTCCTGGTATAGAAATTAGCATTTGAGTAATACAAAGACAACCTTTACACAACACACTAGAGCTTACCCTAATGGAGAGTAACCATTTCTGAAATCAAATGGAGTCAAATGAATAGCATGCTCAGGGAGGGAGGAGATGGGAAGGGACAGGACAAGGTGATGCCTGGCCAGTGATGCCTCTTCCTGGGTCTCTTGCCTTCCAG
Seq C2 exon
GAGGAACCATGGGTGGCTATGTCTTAACAGACTGTGAGTGATCTGCAGCCTGCTGAACCACGGAAGAGAGAAAACTCAGCCAAAGACTTGGAGGGGGCACACTTGCTCCACTGTAGGACACAGTTGGACCTAACACACAGAAACTGCCTGAGAACTGTGCTCTTAGCTTTCTCTGTTCACTTTCTTAAGGTGTTTTCTCCAGTTAAGTTCAGTTCCTGAATAGTAGTGATTGCACCAGTTGCAACCTCTCCCTCCAGAACTGGTCTCATGATTCTTAGGCTGCTTCTTGGAAGCATCCTATGTTTCCTTCATGCACCTAGACTCCATATGTCTACGTAAAGAGCCCCTCTAAGTTTAGTGGATACATGATTCGTTTCCACATCTGAAGAAGTTGTGAACCTTCATCCGGGGATGCTCACACATACTTGAGCCAGAATTTTTCACCTATATCCTAGAATCCAGGACCCACTCAACTATCCTCCATCTGTTATAGAGTGACTCCTCTGTCACCATGCCCTGACTTCTCTGCCATTGGAGTGTTATATATATGGATCATCAATAAAGCCATGAAGGCTACACAACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006611-Hfe:NM_010424:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
ATCAGTGGAGTCACCGTCTGT
R:
TGAGACCAGTTCTGGAGGGAG
Band lengths:
344-1541
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: