MmuINT0077944 @ mm10
Intron Retention
Gene
ENSMUSG00000015501 | Hivep2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:MGI Symbol;Acc:MGI:1338076]
Coordinates
chr10:14142241-14143954:+
Coord C1 exon
chr10:14142241-14142342
Coord A exon
chr10:14142343-14143058
Coord C2 exon
chr10:14143059-14143954
Length
716 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TTACTGTTGGGTTCTTTCAGAAA
3' ss Score
8.67
Exon sequences
Seq C1 exon
GAAACCTAACAAAACACATGAAATCTAAGGCCCACATGAAAAAGTGTCTGGAGCTGGGCGTGTCGATGACATCAGTAGATGACACAGAAACAGAAGAAGCAG
Seq A exon
GTACGTGGCTTACTGAATGGACTGGCCTCTCGGGTGGCCTTTGTGGTCCTGTGATTACACGCCACTTTATTAAGTACTCTTTGCAGGGAATGAAACAGCATACTGAGCTGCTTGGGAACTAAGGAGAAAGGAAACCATTTGCCGTGGAACTTGTTTTAGAGGGGGAGGGCTGTATTAGCAAAATAATTGTCTCTAAACACGATAAAGGGATGTGTGCATGAAGCAGGGGATGGAGTTGTGATTTATGTGCTGTGAAGCTTTGGGAGGAAACTGAAAGCATTTTAATGTGTTAGTCTGAGAGGAAACATAGTAGAAAAACTATCCATCATTAACCCCAGTTGAGGATCTGGAGGTCGGCAAACCTCCTGAGGTATCCCTCTTACACATAAACTTGCACCTGAAACAGGAGAGACAGGCTGTTGCTTTGCTTTTCTTCCTCTAGTGTCAGTCAATACTAGCCACATCCATTTGCTTTGAGTTGTGTCATGAGACTTCTCTGAAGTCTGAAATATGAGATCCTATTCTGGAGTTCTCAGGGGTGAAACCAAGTAGGTACAAGTAAGTGTCCAGGGGTGATTCAGAGCCATGATCAAACGTTTCAGGGGGTGAAGGGGGGTAAGGAAAGCTTTGGGGAAGAGTGTTGGGGCAGATAGAAGCTCCCAGGCTTGAAAGTGGGATCTTAACCTCTGTTAATAATTACTGTTGGGTTCTTTCAG
Seq C2 exon
AAAATATGGAAGAGTTGCACAAAACATCTGAGAAGCACAGCATGTCCGGCATCTCCACTGATCACCAGTTCTCCGATGCGGAGGAATCGGATGGGGAAGATGGAGATGACAACGATGATGATGATGAAGATGACGATGACTTTGATGACCAAGGAGATTTGACACCCAAAACAAGGTCAAGAAGCACCAGTCCTCAGCCTCCTAGGTTCTCCTCCTTGCCTGTCAATGTTGGCGCTGTAGCCCATGGCGTCCCTTCAGATAGCTCTCTGGGACATTCGTCATTGATCAGCTATTTGGTCACTCTACCGAGTATTCAGGTTACTCAGCTCATGACACCCAGTGACTCTTGTGATGACACTCAGATGACAGAATATCAGAGGCTGTTCCAGAGCAAAAGCACAGACTCTGAACCGGACAAAGACAGGTTAGACATCCCAAGCTCCATGGACGAAGAGGCCATGTTGTCTTCAGAGCCAAGCTCCTCCCCAAGGGACTTCTCCCCCTCAAGCTACCGTTCCTCCCCAGGCTATGATTCTTCACCCTGTCGAGATAATTCGCCAAAGAGGTATCTGATACCCAAAGGAGATTTGTCACCCAGAAGACATTTATCACCTAGACGAGACCTGTCGCCGATGAGGCATCTGTCACCAAGAAAAGAAGCTGCATTGAGGAGAGAGATGTCCCAAGGGGATGCCTCACCAAGAAGGCACTTGTCCCCAAGGAGACCATTGTCTCCTGGAAAGGACATTACAGCAAGAAGAGATCTCTCTCCCAGAAGAGAGAGAAGATATATGACCACCATCAGAGCACCGTCTCCCAGAAGGGCTTTATATCCTAACCCTCCATTATCCATGGGACAGTATCTACAAACAGAGCCAATTGTATTGGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015501:ENSMUST00000015645:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.977
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAAGTGTCTGGAGCTGGGC
R:
TGACGAATGTCCCAGAGAGCT
Band lengths:
345-1061
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