MmuINT0078847 @ mm10
Intron Retention
Gene
ENSMUSG00000001249 | Hpn
Description
hepsin [Source:MGI Symbol;Acc:MGI:1196620]
Coordinates
chr7:31114678-31115290:-
Coord C1 exon
chr7:31115136-31115290
Coord A exon
chr7:31114745-31115135
Coord C2 exon
chr7:31114678-31114744
Length
391 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CTCCTTGTTCCTGTCCCTAGGTT
3' ss Score
12.64
Exon sequences
Seq C1 exon
TCAGGTGAGGCCGCAGGCTCGGCAGGCCCCACGCTGCTGGCTGCTGCTGCCACCCTTGCCTTCCGGGCTGTCCGCTGCTGTGGGGACAGACACCATGCCCCTGCCCAGGCCCGGAGACTAACCCCAAACCTGCACCATCTCCGGCGAACCCCAGG
Seq A exon
GTAAGGCACAGAATGCGAAGCCCCTCATCCCCCACCAGTCTGATGTTCAGCAGCCCGTGTAAGAGATCCCAGAAACCCCCAGACTACTCCAGCCTGCTTTCACTGCTAACTCAGAAATCTGAGGACTCCCCCAAGTTCTCCTCCCTCAAAACCCTCAAGTCCCCTGGAAGTTCAACCTCGCCCGCCCGGTGTTCTGACCTGCCACTCCAGGTGTCCCCCTGGTGGCTGGTCACACATTGTCATTATTGACCCCCGGCCCAACCTCTGTCTTTGCATGCTCTGGCCCCAGCCCACGGTCGGCTGCTCCCTGGATGGGAGCCTGGGACTGGGGGCGCCAGGATAGAGCCAGGCCAGGCTCCCCCAGGCCATGCCTCCTTGTTCCTGTCCCTAG
Seq C2 exon
GTTCCGCCCCAGCCCAACAGGTCAACCTGGGAATCATTAACAAGAGTCCCTGACATGGCGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001249:ENSMUST00000108102:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.333
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping 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:
CTGCTGCTGCCACCCTTG
R:
CCTCCTTCGCCATGTCAGGG
Band lengths:
182-573
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