MmuINT0077497 @ mm10
Intron Retention
Gene
ENSMUSG00000006611 | Hfe
Description
hemochromatosis [Source:MGI Symbol;Acc:MGI:109191]
Coordinates
chr13:23703840-23705734:-
Coord C1 exon
chr13:23705624-23705734
Coord A exon
chr13:23704427-23705623
Coord C2 exon
chr13:23703840-23704426
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
GAGGAACCATGGGTGGCTATGTCTTAACAGACTGTGAGTGATCTGCAGCCTGCTGAACCACGGAAGAGAGAAAACTCAGCCAAAGACTTGGAGGGGGCACACTTGCTCCACTGTAGGACACAGTTGGACCTAACACACAGAAACTGCCTGAGAACTGTGCTCTTAGCTTTCTCTGTTCACTTTCTTAAGGTGTTTTCTCCAGTTAAGTTCAGTTCCTGAATAGTAGTGATTGCACCAGTTGCAACCTCTCCCTCCAGAACTGGTCTCATGATTCTTAGGCTGCTTCTTGGAAGCATCCTATGTTTCCTTCATGCACCTAGACTCCATATGTCTACGTAAAGAGCCCCTCTAAGTTTAGTGGATACATGATTCGTTTCCACATCTGAAGAAGTTGTGAACCTTCATCCGGGGATGCTCACACATACTTGAGCCAGAATTTTTCACCTATATCCTAGAATCCAGGACCCACTCAACTATCCTCCATCTGTTATAGAGTGACTCCTCTGTCACCATGCCCTGACTTCTCTGCCATTGGAGTGTTATATATATGGATCATCAATAAAGCCATGAAGGCTACACAACTGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006611:ENSMUST00000091706:5
Average complexity
IR
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
(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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types