MmuINT0077953 @ mm10
Intron Retention
Gene
ENSMUSG00000028634 | Hivep3
Description
human immunodeficiency virus type I enhancer binding protein 3 [Source:MGI Symbol;Acc:MGI:106589]
Coordinates
chr4:120131722-120138045:+
Coord C1 exon
chr4:120131722-120132629
Coord A exon
chr4:120132630-120133580
Coord C2 exon
chr4:120133581-120138045
Length
951 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GTCTTGTTTTCTGACTCCAGCGG
3' ss Score
6.65
Exon sequences
Seq C1 exon
GAACCAGTGATGACCTGCACCAGGACTCAGAGGGGCAAGAGGGCGCCGAGGCTGTGGAGGAGCACCAGTTCTCAGACCTGGAGGACTCTGACTCAGACTCAGACCTGGATGAAGATGAGGAGGAGGAAGAGGAGGAGGAAGAGAGCCAGGATGAGCTGTCTGGGCCATGCTCGGAGGCAGCTCCGCCTTGCCTGCCCCCCACACTACAGGAGAACTCCTCACCCGTTGAGGGCCCTCAGGCTCCAGATAGCACTTCTGACGAGGTCCCGCAAGGCAGCTCCATCTCAGAAGCCACGCATTTGACCGCCAGCAGTTGTTCCACACCTAGCCGGGGTACCCAAGGCCTTCCCAGGCTGGGACTGGCCCCACTGGAGAAGGACATGAGCTCAGCCCCGAGTCCCAAGGCCACGTCCCCTAGGAGGCCGTGGTCCCCAAGCAAAGAAGCAGGCAGCCGCCCCTCACTCACTCGCAAACATTCACTCACCAAAAATGACTCGTCTCCCCAGCAATGTTCACCGGCCCGAGAAGCTCAGGCCTCAGTAACGAGCACACCTGGTCCCCAGATGGGCCCAGGAAGGGACCTGGGCCCTCACCTTTGTGGGTCTCCAAGACTGGAGCTGTCCTGTCTCACTCCCTACCCCATAGGAAGAGAAGCGCCCGCTGGACTCGAGCGTGCCACAGACACAGGCACCCCCAGATATTCACCCACCAGGAGATGGTCTCTGGGTCAGGCCGAGTCACCGCCACAGACAGTGCTGCCAGGGAAATGGGCCCTGGCTGGGCCCTGCAGCCCCTCAGCGGACAAGAGTGGCCTGGGCTTGGGGCCGGTTCCACGGGCCCTCCTCCAGCCCGTGCCTCTACCTCACACACTTCTCAGCAGAAGCCCTGAAACGTGCACCTCTGCATGG
Seq A exon
GTGAGTCCCTGCTGTGGCCCTCCCGGGGGTCAGAAGCTGCCCATTCACACCCTCTGCCCCTCACCCCAGAGCCAGGCCGGTATTCCTGGGCATGTGGCAAGCTTTTCTTAGGTCCCTGTGTCAGCTAGTTCATTGCACTTTGAGGCACCCTCAGAAGCCCCAGACATGGCTCTGGTGTTCACAGGCTCTGGGTTCAAGCCCTAGTGGGCAGTGTAGCCTTGGATATGGACGTAACACTTGTGTAATTCTTCGGCCATCACTTCCCTGTCCATGTATGTCCTTGGAGCAGTCGACAGCTTTACCAAAATCATCTGTCCCCATCTCCTCCCTGTGGAACTATGACAGCCTTGCCTCTGTCACCACCATGCCCCACCACACCCCGCTACTGCCCATCACCCTTCCTTGACAGTGCTTGCCTTACAGTATCTGTACCACTGCCTCACTGCCCCTCCCCCCACCCCCGAGGCTGACACTGTCCACGGCTGGCACTGTCCCTGTTGACATTTCTTACACTGTGCTGTCATGACCCCACAGCATCTCTCCTGGAAGAACACTAACTGAAGCATCTCTCTTGCCTCATTGAACTTCCTGTAGTGAAAGGTTGAGATCTTTGGGTGGGAATCCATATGCAAGGGTAAAGTTAGGCCAAGACCATCTTAAGAAGGGGAGAGGCAGAAGAGCCAAGGTAGACCAGGGTGAGCACAGAGCTCCCCCCACACCCCCCCACACCCCCACACACACACACAAGAGCTGCCTCCTACAGATGTGGGCCAACATGTACCTCTAAGTTGCCCAGTTGGAAGCTTGCCGAGAACTGCAGTAGGACTCCTGATTCTGGCCGTACTCACCAGCCGTACTGCAATCTCAGGCCTCCCCACCCTCTATACCGTTAGCCCTCAGTTCTGCAGGCACGTAACCCTTGCCTTCTCCCGTCTTGTTTTCTGACTCCAG
Seq C2 exon
CGGAAGACTGAGTCCCGAAGTCCATCAGCTGGCCCTGCTCCTCTCTTCCCCCGACCATTCTCCGCCCCTCATGACTTCCATGGCCACCTCCCTAGCCGAAGTGAGGAGAACCTCTTCAGCCACCTGCCTCTGCATTCCCAGCTCCTGAGCCGCGCCCCCTGCCCCCTCATTCCCATCGGTGGGATCCAGATGGTACAGGCCCGGCCAGGAGCCCAGCCCACCGTGCTTCCTGGACCCTGCGCGGCCTGGGTCAGTGGCTTCTCAGGGGGCGGCAGTGACCTAACTGGGGCCCGAGAGGCCCAGGAGCGCAGCCGCTGGAGTCCCACAGAGAGCCCTTCAGCATCGGTGTCCCCTGTGGCCAAGGTCTCCAAGTTTACACTCTCGTCAGAGCTGGAAGAGGAAAGGACCGGCAGAGGCCCAGGAAGACCTCCTGACTGGGAACCTCACAGGGCTGAAGCCCCTCCAGGACCCATGGGCACACACAGCCCCTGCTCCCCACAGCTGCCCCAAGGCCACCAGGTGGCACCTTCCTGGAGGGGCCTCTTGGGGTCACCACACACACTGGCCAACCTAAAGGCCTCAAGCTTCCCACCACTGGATCGCAGCAGCTCCATGGACTGCCTGGCAGAGACCTCCACTTACTCTCCACCCCGGAGCAGGAACCTCTCTGGAGAACCCAGGACCCGTCAAGGCTCCCCTGAGCTCTTAGGTAGAGGGGAGCTCAGGACACCTCTATTCCTGCCCAAGGGTAGTGGCCCCCCAAGCATCTAGCCTCTACAGCTACTTCAGCGCCTGGCCTCCAGTGTCGGCAGCAGACATGCCCAGACAACCGCCTGGAGTCATCTTGCTCCCTTGGGCATCCTCTCCCATCTGTCCATCTGTCCATCTATCCATGCAGCTTCTGCTCAGCCCCATCTGTTCTATTTCTCCACATATGCAGTTACCTGTGCCTTTTTCTAGACCTTTTGTTGCTTGAGAAAAAAAAAAAGAAACAAAACAAATCACACACATCCATAAACAAAACAAAACAAAACAAAACGCATCCCTGAGGAGCTGAAGGCTGTGAGTGTGCTCTGGGGACAAGGCTGGAGGAGGGAATCTCACCTCCACCACCACCATGTGCCACATGGGCAGCTGTCCCCACCTCAAGGTCCAGGAGAGGGTCTGTGGCACTGAGAGAGAAGAAGAAAAGGGGAGAAAAACTGTAATTAAATTCAAAGGCAAGCACTCCTACAGTCAGATGCCCACCATCCCCACTGAAAGACGCACAGCTCGTAGCCGCCCTTCTCTGCCATCAGAGGGACACAAATACAGGCAGGAACCAATCTACCACTCCCCACCCTACCCGACCAAGGACATTATCTTTTATCCTTTTTTTTTTTTTCAAGAGTAGGAACCAAAAAGAAAAACTACTTTCTAGCATCTCAGCAGCACAGACTAGCAGCAGGAAAGAGAAGAATTCTGTAGTATGAACTGTGGCTCTCACTTCTCCCTTCCACACCCCACCTCCCCTCCCCTCACCCCACCCCATCCCCCAGGCTCATAAAGGAGCCCGGGTTGCCCATCTCCTTTCTCCTATACACTATAGGTCTCTGCCTCCCAGGCCTGGCCAAAGGCTGGCTCCTCTATGATTAGAAATACCTGCAGGATGAAGGGACCAAGGCCGGACTAGGGATGGTCCTAGTCTGGGCCTGTTTTGAGCCTGGGGTTTGGATTGGTTCACCTCTGTCCCTGAGGAACAACATGTCACATTTCCTTCATGGCTGGATTAACGTATGTGTGTGTGTATATAGATACACAGAGAGAAACCAAAGATGGTGTTTGGTACTTTCTCCAGCCTCCTCAGATTCTCCTCTGTTAACTTAGGGGATTTGTAAATTGTTCCAAGTCCTTTGAATTTTTCTCCAGCTCCCAAGGCAAAAACTCTACTTAAAAAAAAATTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGACCAAAAATTTAAATCCCAAGTTGAAATATGGAATTTGACCTGTTGCATGCTTTAAAAAAAAAGGAAAGCAAGCCCCCTGCGGCACAGGTTCTATGGCTACCATTTCTAAGACCTTCCAGAAATAATTTTCTTTACCTTCACCAAGGAAGAGAGAGAGAAATGGACCATCATGAGGAGACCCCTCCTACAGCCTTGTCCCCAAATCACAAAGCCTGTTCCAGCCATGCTAGATTCTGCTGTCACAGTCTACAAAGCAAGGGCCTGTCTCTGGGCATCAGGCTGGGTGTGTGGCTGAGGGCTCACAGGAGGGCTGCGATGCAAGGCTAGGGGCTGCCTGTACAAGGCCACCCCCGTCCCTCCCTCCAGCTTATGTCATTCTGGTCCTTGCTGGATGGGCAGATCAGCCATAGGCCCAATGTCCACCCCAGTTACCTGGTTTCTCCTCTGCCTGACTCAATGCTTAAGATGTAAGCGTCAGTAGGACTGTTGCCTCTCTGCAAGTCTCCTGCCTACCTGGGAGAAGCTGTCAGGACCAAGCTGGAAGGAAGAGGGTAGAAGCCTGGGTGCTGGTCAGCCCAAGCTGGAGGCTTTTCTCCCTTCTGCCTATCAGCCCTAACCCACAGGCCCTACTGATGCTAAGGGCTGAGCTGGACAAAAACATCGCCTCAAACTGGGCTTGGTAGCTTTCTAGGCTAGAGCTTCTGGCCATTGGAAGAAGGCTAGCTCCTGACCTTGGGATACCTACACCTCTCTACTTCACTCTACACCCAAATCTATCTATCTTTCTCCCTCTCCCCTCCCCCTCCCCCTCCCCCTTCCTCCCTCTTTCCTCACTTCTCTCTCCCCTTCCCCCCATGTCCACTTCTGCAACCTAGTGACAGACAAATGTGTCTACAGAATAGCCCCCACAGTTACTAGGCAGCCCTGACTCAGGGAACTGGGATGTAACAAAGACTAGGTATTGGATATTTGCCTTTAGGTGACAGGGATAGAATACATAGAGTCTCACCGGGAGTGGTGCTCCACGTGCCCAGAGGGTTGCAATGGATGCCACTTCCAGGCACAGCTCTAAGCTCCTCTTCCAAGTTGTCTCCCCCCAACCCCCACCCCAAGCACATGGCCCCAGCCTAAGCATACCTTCTCCACCTGGAAAAAACTCTCACTCCAGGAATGTGCTTTGGGCTCCTCGCCCACAACCAGCCACTTCTGACTTTGCAGTCTGCCTGTGACACTACTGTCAATGATGACAGTCTAGTTCAGACATCTGTGCGGGGTCTACTGAAACACACTGGCACAATATGGCCTTGCCACAGACTCTGCTTCTCCTTACCTGTGACAGCTGGGGAGGTCTCAAATCAAATCAGCCCTGCCTGGGTGGTGGTTCCAAGCCACTCATCCCTGAGGCCTGACCCCTAGATGCTCTTCCCTGGGCAACCTCACATCATTCTAAGTCTAACTTAACCCCTTCCACACCAAGGGCAGGCCCGCTTCTTCCAACCCCCCATCATAGCTGATACTCTGGTCCCAGCCACCAAGACCCTCCAGGGGTTCTGACAGGGGTAGCTACCTATTTTTTTTCCCAGACACAAAGTCTCTGCCTGCCTCAGCGGGCAAACCTCTTAAGAGAAATAACTCCCAGGTCCCTCTGGGTGTTGTCTGCCCCCCACCTGGCCCCCAGAAGAAGGAATATGTCTGAGCTGAAATCTCCTCCTAGTCTTTGCTCCAGCTGACTCTTCCAGGTGACGTCCTGGGAGACAGATCTGCTCTGCAATGTCTTCTGAGAAAATTCCTAAGGTCAGTGCCGCCAAATTCGCTCCCGTGTTGTGGTTCCTGTCTGCTTGGCATCTGAAAACCGCTTGGGCACTACTGGTCACTTTCCTCAGTGTGGTGATCAAGGAGGAAGGGAACGGTGCAGGCAAATGTAAGATACTTACACTCTGTAAGATAAATCTCTGCCTCTGTTGTTTGTTTTCTTTTTTAAAGGTGTACGCATTCTGTACGTGAAATCGTCTGTAGAGAGTTTCCACGTTCTTAAATGGCAATACATTCCAAAACTCGTACTGTAGATATGTACAGCAACCGCACTGGAAAGGGGGTAGTTTTGCCTGTGGTTTTATTTAAACTCCAGTTTCTACACTTGTATCTTGCAGTTGTCGGTATGGTATTCATCAGTGCAAAAGAAAAACAAATAAAAAAAAAAACTCAAACAAAAACAAAAGAAAAAAGAAAAAAAAAGAAATCTTACACAGGTCTAAAGCACAGAGTCTGTTATACAAAAGGAAAGAATCGCTCAGTATTGGTATGTGTGACCCTTGTTGTAAATCCCATCTGTACTGTGAATGAGACGTTTTTACAAGTATAATAATTGCCTTTATTACAGCTTGGGCTGGGTGTTCAGCCTGAAGATATTTTTTAAAAAAAAATATATAGCACGTTGGAATAAATTTGAAAATTCCCAACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028634:ENSMUST00000106307:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.934 A=NA C2=0.887
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTGTCTCACTCCCTACCC
R:
AGAATGGTCGGGGGAAGAGAG
Band lengths:
350-1301
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