MmuINT0077495 @ mm10
Intron Retention
Gene
ENSMUSG00000006611 | Hfe
Description
hemochromatosis [Source:MGI Symbol;Acc:MGI:109191]
Coordinates
chr13:23705861-23707066:-
Coord C1 exon
chr13:23706767-23707066
Coord A exon
chr13:23706137-23706766
Coord C2 exon
chr13:23705861-23706136
Length
630 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
ACTTCCTCTTTCCCTTCAAGTGC
3' ss Score
8.62
Exon sequences
Seq C1 exon
TCACGAAGTTGGGAGTGGTGTCCGAGTCCCACATCCTGCAGGTGGTCCTAGGCTGTGAGGTGCATGAAGACAACAGTACCAGCGGCTTCTGGAGATATGGTTATGACGGGCAAGATCACCTGGAATTCTGCCCCAAGACACTAAACTGGAGCGCAGCCGAGCCAGGGGCCTGGGCCACCAAGGTGGAATGGGACGAGCACAAGATCCGTGCCAAACAGAACAGGGACTACCTGGAGAAGGACTGCCCCGAGCAGCTGAAACGGCTCCTGGAGCTGGGGAGAGGCGTTCTGGGACAGCAAG
Seq A exon
GTATGAAGAACTGTGCTCAGGCCCTTGGTGACTAACTTAGTATGTAACCAAGCCTGGCCTCAAACTCCCAGAAATCCTCTTGCTTCAGCTTTCTATGTATTTCTAGGATTACGGTCATAAACCATCTGCTTCATTGTTGTTTGTCTGATTGTTGTTTTCTTCTTTAGATAGCCTCTCACACTGTAGCCAAGGCTGGTCTAGATCTCACTATGTAGGCCCAACTAGCCACAAAACACAGCCTCGCCTTCCTAAGTCTTGAATTTCAAAGAGTGAACCCACTGTTGGGGATGAACTTTTTGCTTCATATTGAAGCATATAACACAACTAAGAACTAATAAATTAGAAAGGGAAATGTTAGTGGCCTGACCAGAGGACCTGGGCAGACAGTGCTGAAGAGGAAAGACTGAAGTGGCTGTTCTCCATTAGTGTGTGACTTCATCTTGAAGCCATTTTCAGGATATCAAATGGCATCTCTGGCAGCCAGGGTTTTTTTGTTTTGTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTATTTTTCCTACCCAAAAAGAGAAGTGAAAATTCCAGTTCTCTTCTCTGGAATAAGGCAGCCTCCTCATGTACTTCCTCTTTCCCTTCAAG
Seq C2 exon
TGCCTACTTTGGTGAAAGTGACTCGCCACTGGGCCTCTACGGGGACCTCTCTAAGGTGTCAGGCTCTGGACTTCTTCCCCCAGAACATCACTATGAGGTGGTTGAAGGACAACCAACCACTGGATGCCAAAGATGTCAACCCCGAGAAGGTGCTACCTAACGGGGATGAGACCTATCAAGGCTGGCTGACATTGGCCGTGGCCCCTGGGGACGAGACAAGGTTCACCTGTCAAGTGGAGCACCCAGGCCTGGACCAGCCTCTCACTGCCTCTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006611:ENSMUST00000091706:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.057
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(51.9=95.0)
A:
NA
C2:
PF0765410=C1-set=WD(100=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCCTGCAGGTGGTCCTAG
R:
AAGTCCAGAGCCTGACACCTT
Band lengths:
343-973
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