MmuINT0077937 @ mm10
Intron Retention
Gene
ENSMUSG00000021366 | Hivep1
Description
human immunodeficiency virus type I enhancer binding protein 1 [Source:MGI Symbol;Acc:MGI:96100]
Coordinates
chr13:42181432-42185026:+
Coord C1 exon
chr13:42181432-42181931
Coord A exon
chr13:42181932-42183391
Coord C2 exon
chr13:42183392-42185026
Length
1460 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
CATTGTCTCTTGTCTTTTAGGAT
3' ss Score
12.35
Exon sequences
Seq C1 exon
ATGAAAAGCAAAGATTCGGTTGCGAGCGGTCTGGATATGATCTTGAAGAGTCTGATGGCCCAGATGAGGATGATAATGACAACGAAGAGGATGATGATGACAGCCAAGCAGAGTCTGGTCTCTCAGCAGCACCCTCAGTCACAGCGAGCCCACAGCATCTCCCATCCAGAAGTGGCCTTCAGGACCCTGGGAGTGTCGAGGAGGAGCTTAGAGTTTCCAGTTGCTTCTCAGGGGTACATACAGACCCAATGGACATTCTACCTAGAGCACTGCTCACCAAGATGACTGTTCTGAGCACAGTGCAGAGTAGCCCTAACAGGACAGACTTACCAGCAAAGGCCAGGCAGAGTACTGAGAAGGATGAGCATGAGCAGGCTCCTCCCGCAGACACCCCCAGGTCCCCCGGCCATCAGCTGTCTGTGCATTCCTCTGAATCCGATGTCCTGAGAAGTCCTGCAGCTGGAAACCCTGCCGCTGGAAGCCCTGGGGCTGCAGTACAG
Seq A exon
GTAGAGGAGTGTCGGGGGGTGCGGGTAGGGGCTTCTGTGGGTTTTGTTTTCTCTTCTTATTCCATAAGGAAAACTTAATAGATTAAAGAAAGTCATTTATGACCATATGAGTGTGTACCTTCTTGTTGTTAGTTGATGACAGAATTCATTTATGTCTAGTAAAGCCTTGTGAATTATCTTGACAAAAACCCAAATAGTATATTATAACTTGTGGTGCCTTGTTAAAAAATAAACTCCTTAATTATTTGCAGGGCTTTTAAGCACACACACAAGTATGCATTTACCAGTTTTAAACCCACACCCCAAGACGGAAGGCCCCAGTGGTTTGACTCTTGCTTTTCCACTAATGTAGTTGTGATGGGTTTACAGCACATTTTCCAAATTTTGTGCTTTGCTAGTAGGCTTCATGACAAAATTAGTGGGGCACAAAAATAATTCAAGATTTCATGTTGTTTGCATGAGCACACTGCTGGGAATACTTGGGAAAGCTTTCTTCCAGAGGGGGCTCAGAGGCAGATGCCCAGCTCCAGAGAAGTGTAAGAAGCTTACTGCATGCTTTGCCCTGGCTGCCTCCTAACCAACAAAGAATTTTGTCTCTCACTGGCAATTCTTTCCCTTCTCCTATGTATTGAATAAGGCAGTAGGGTTTATTTCTTAGTGGGAAAAGATATTTCCTACTGGAAAAAAAAAGCTTAGAATTTTACATACTAAGAATTTTACATACTAATAAACCTAATTTCTCAGTTTAATATAGAAATTAAATTATAATGTGAACTAATATAGCCACGGAAATGCATATATATGCAAGAAAAAGCTAGTATGTAAATAAAATTCACGGATGAAAAGGACAGGCAAGATTCATCCTCCCCCAAACTTTTAAGATATTGTTCACCTGTCGTCTAAGCTGCTGAATCAGCATCTTAGATATGGCAGTTACGTAACCACCGATGCCTGAAAATCTAGTCTTCACAAATCTTATCAGCTTATGAATGAGTTAGCAATTAATGAACAACTATAGACCTCTGTCTTAATAACAGCTCTTCATTTCATAAAATGAATAATATTTTGGTTAATTTTTTCCCAGTGAGTTGACACAGCCAATTAAGATGGCATTTCTCAACATCTCCTAGTCTCTAAAATACAGTGGTGCAGGTGGTGCCTGAAAAATATCATCAGCGTAAACATAGTCATGCTCAGCTCAGTATAAAATGATGCCTAAGAACTGGTTTGCAAATTGCAAAATACTATACATTTTTTTTCTGGTATTGGTAGTAGGAAAGAAATTTTAAATGAAGCTATTTTTGTTTTTGAAAATTTCTAAAAGAAAAATCAAAGCAAATTTTGTAGCAAGCTGACAAATGTCAAATACAAATCTATCATGGAACACAATGAAAACAGATTGAACGCTAGTATCTTAGTGGTGATGAAGGCTATCTGGCTCATTGTCTCTTGTCTTTTAG
Seq C2 exon
GATTCATCTGTGGGGCTGCCCCCTGCCGTAGCCCAGCTCAACCCTCAGCCGGCTGCCAGGATTTCTTCCTCAGTCTCACCTCACCCTGACAGTCAAGACCAGAAGCAACAAATAATCTTGCAACCACCTCCCGGCTTGCCTTCCCCGCAGACACATCTGTTCAGCCATCTCCCCTTGCATTCCCAGCAGCAATCAAGGACCCCATACAACATGGTTCCCGTAGGGGGTATCCATGTGGTGACTGCCGGCCTCACCTACTCCACTTTTGTACCCATACAGGCCGGGCCAATGCAACTGACCATCCCCGCTGTGAGTGTTATTCACAGAACCGTGGGCACCTCTGGGGATACCATCACTGAAGCTTCGGGCGCTCCTAATCGCCCCACCGGAGTGGCGGAATTGAGCAGTGTTGTGCCCTGTATTCCCATAGGCCAAATCCACGTGCCAGGCCTGCAGAACTTAAGTCCCCCAGCCTTGCAGTCGCTTACGTCCCTGGGGATGGAAACAGTCAACCTGGTGGGCCTGGCAAACGCTACCGTGGGCCCGCAGGGGCACCCCCCGGGCCTGGCCCTCAACGCAGTGGGGCTCCAGGTTTTGGCCAACGCGCCCGCCCAGAGCAGTCCCGCCCCACCGGCACACATTCAGGGACTCCAAATCCTCAACATCGCCTTGCCCACCCTGATCCCCTCCGTTGGCCCGGTGGCTGTGGGCACCACGGGGACTCCAGAGACGACTGCTCCCAACAGCAAAGCAATGGAGCTGCAGATGCCCGCAGGCCAGGGACACAGTGCCGAGCCTCCACAGGGGTCACCCGAAGGCCCTCAGGAAACCCCACAAACAGTGTCCGGTCCTTCAGCGGACCACGCAAGGCCTGAAGATTCAACCAAAATGGACACCAAGAAGGGGCCCTCTGCGGGTCATGTGTTGCCCGGGCGCTCCCCTGCGCAGGCGCAGCCAGCACCCACACCGGAAGCTTTACAGAAAGTTGCAACTTCAGCTCCTCCATCACTTCCTACAGACAGAGCGGCTCCCAGGCCCCCAGTGCCCCACAGGCAGCCCATTGTACACTTCAGCGACGTGAGCAGCGATGATGACGAGGACAGGCTTGTCATAGCAACCTAATGGTTTGTTTTTTACTGATTTTTTTTTTTATAACAGGTTTTTTTGAAAAACCCTCCTTTCCTTAAAGCACATTTTTTTCTGACATAAACTCATGACTAATCTTTGTGCAATCATGAACTTTTGACCAATAATTGTTGTTTTGTGTTAGTCCCAGCCATTTTTGTATATGTTGTATAGACAATTGTGCCTTTTAGAAGTTTTATGTTTAGAATCTGTACAGATGGTTGAATATCTATATACATACAATGTTATATATGTATATGAAAACCAGGTAGTTGTGTTTAGTAGAAACTTGTCAAATAAATCAGATGACTAAATGATATGTTGCACTGTTAAATATAAATTTTTACGGCTGTGGGGCAGTTTCTGTGTATAAATTAGTATGTAAACCTCATATTTATTGTATTCATATTAGTCTTTGCAAATGGATCTGTCATTGTGTGAGACAGTAACTGTACACTTCAGACAGATTTTCTGTGTTATGAACTGTTTCAGTAAATACTGTTCACAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021366:ENSMUST00000060148:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.970 A=NA C2=0.732
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGGCCAGGCAGAGTACTG
R:
AAGGGGAGATGGCTGAACAGA
Band lengths:
343-1803
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