MmuINT0180032 @ mm10
Intron Retention
Gene
ENSMUSG00000072623 | Zfp9
Description
zinc finger protein 9 [Source:MGI Symbol;Acc:MGI:99210]
Coordinates
chr6:118477307-118479320:-
Coord C1 exon
chr6:118479206-118479320
Coord A exon
chr6:118477425-118479205
Coord C2 exon
chr6:118477307-118477424
Length
1781 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TGTCTCTAACTTTCTCACAGGAG
3' ss Score
9.1
Exon sequences
Seq C1 exon
CTGAGCCACCGCCCGGGTGACGTGGCACCCACTCGCCTTGTCCTCCCGCCACGTCGGCGTCCTCCCGCTTCTCAGCCATCCCCGGGCATCTGCAGCGGAGGCCGCTGTCACCGAG
Seq A exon
GTGAGAATCGCTCAGGGCGCACGGAGCAGGGCAGTCTTGCAGAGTGCTGTGGAACAAGCAGGGCGGGCTGCTGCTTTTCCAGCAGAGCCAGGTCCTTTCATCTGGGCCCCTCAAAGCTGTTCACAGAGGCTGTTTGGTTTACCCAGTACCTGCGGGTGGTCGTAATCCTCTATTGTTTAACTCTGCCGGGCTTGTCTCTTCCACGCAGTCCTGTCTGCGTCTGCTTTCCGTGCAGCCGCTGAGGACACAGCCTTGAAGCATACTTGATCATACCTGGAGTCTTCTATTCCTAAAACTCCTCCAGCCTCCTCTGGATCCCTTAGTGTGAGAGATTAATTAAGGCTCTCCCTCCCCATATCCCTCAGCTATCCTTTGTTAGACTGTTGAACAGTTATTTGGAAGTACAGTATTGCTTTTTAAAAAAAGGTCTTTCAGTATTAAATTTTCCTGAGAATCTGGGAATTATATACACTCACCCTCTAAGGGAATAGAAGTAAAACAGATTGGGGGTGGGGTGTCGATCTGGCCTTGGAGCTCCAGACTAGTTTGGAGCTGTTGAAACTCCTGCCTCAGCCTCCAGGATGCTGGGTTTACAGGTGTGTGCCACCCCGTCCAGCAGAGACAGATCTAAAAGATGAGAACTGTTGTTCATTTGTGTTCTCTGTTACGAAGGAGATTTCCTAAGGCTGATGATTGGCGCATTTGTATCTGGCCTTATACATTAGGCCTTTGGTATGCACCCGGCTGACTGGAATTAAGCATTTGGTTTTTTGTTTGTTTGTTTTTGTTTTTAATCTATATACACGATATACCTTTTTAGGGAATATGGTACTAAAACTGTTGTCTAATTAATTAATGACTTTATTTATGTATTTATTTGAAATAATGTCTCACTATGTAGTCCAAGCTGGTCTAGCTCTCGTTCTATAGCTTAAACCAGCCTTAATCTTGCTATCTGCCTGCCTCGGCCTTTACAGTGCTGGGGCTAGAAGTGTGCCTCACTCCATGTGGCTTCAAATTGCTATTTTTGAAGGTAATTTTGTTTCAAAGCTTCATTTGTTTCAAAGCTAGATTTGGCAGCCATGCAACAGTTCATTAAGATGTAATTTAATTTCACCCCACCCCCCTGTTTCAGCCTGTTTTGAGAGGCCAGTCAATTACAGGGATCTAAACCTGTTGTGTGGCTGTCAAGGCTTGACCGGAGGCTGCACAGAGGGTTATTCACCATGATTTAATTCCTTTCACTTTAAGAATAATAGCATTGAAACTAAGTCCCAATGCCGGTAGCAGACATAGCAACAGAACCAAAAGGAATCATATATAAGAGAAAATGGATCACATGTAAGGTTCTTGAAGAAGTGCTCCGTTTTCTTTTTGCTTTGAGAAACTGTAATTTAGGGAGAAGAAATGCCTGGTATTTGAAAGCTTTAAGATGACTTTCTAGCTTTGGAGGAATGTAATATTAACAGAAAAAAAATGTTACTTCCAATATAAACAGCCAAGGTCCCCTGTTTGCATATGTTACAGTTCCTTTGAAATGAATCTGTTCTTTGGTGTTTACAGGTTGGGTGCTTTTATCTTAGTCAGTAAGCAGACAGATGCTTTTCAAACAGACAGTAGAAATGTTTAGATTTAGTCAAAGACAAACACGCCCCAGGCTCATCAGGATGGGGAGAAGGCTCAATAGAGAGGCCAGTAGTACTTCATCCTGGTCCCTCTGATTGGGTCAGGACAGCTTCTCAGTATACAGTACTAAAATGCTGTCTCTAACTTTCTCACAG
Seq C2 exon
GAGACCTGGAGCTGTGGCCTATGATTTCCTAGGACTTCACTCTCCCAACTTTAGAGGGTAGAACACCACCACTCCCCATCCCCGCTCTAAAACACTGCAGAAAATGACCAAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000072623:ENSMUST00000161170:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCACTCGCCTTGTCCTC
R:
TGTACTTGGTCATTTTCTGCAGTGT
Band lengths:
206-1987
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