MmuINT0003954 @ mm10
Intron Retention
Gene
ENSMUSG00000051278 | Zgrf1
Description
zinc finger, GRF-type containing 1 [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127560896-127563218:+
Coord C1 exon
chr3:127560896-127561081
Coord A exon
chr3:127561082-127561474
Coord C2 exon
chr3:127561475-127563218
Length
393 bp
Sequences
Splice sites
5' ss Seq
ACTGTACGT
5' ss Score
6.33
3' ss Seq
AATTGTTTTAATTTGTTTAGGGT
3' ss Score
6.97
Exon sequences
Seq C1 exon
GTGAAACCTGGAGATGACTTGGAAAGTGAGCGGTATTTAATCACAGTTGAGGAGGCTAAGGCTGTTGGAAGCAGAGCTGTTGAACCGGATGGCTCTAGAGAAGCACTGGAGTCAGGCTCAAGGACGCTTGTATCCTCCAGCAGGTCTCTTGGGTGTCAGCCCTCTGGCTTAAAAAGGAAGGCTACT
Seq A exon
GTACGTTTCTATGTGGGAACCAATATTTCAATGTATAGTTATAAAGAAGTTATTTTTAAAACCAGTAAATTTTTATTATAGGTTGCTGTTAAAATGGTGCTTCATTGTTTACTTAGGAACACAAAAGTAAATCCAAATTAGAAAAGTCGTACTAATATATCTTTATATTTTAATATAGCAAATTTTAAATATTTTTTACCTTAGGCAAAGCATACATACTGTTACTCTTTTTAGCAAATTAATTTTACATTTTCTTTAGAAATAATGGTATAGGACTTTTGGGATAGCATTTGAAATGTAAAATAAGAAAATACCAAATAAATAAATAAATAAATAAAAATTTAAAAAAAAAAGAAAGAATGGTATAGCTGACAATTGTTTTAATTTGTTTAG
Seq C2 exon
GGTTTTCAAAGACCATATAAGATGCCAAAGAAAGTGACTATTACTGAGAACAGTGAACCTGCTGCCTCACTTGGTGATGAGAACCCTGGCCCGCCTGGCCCGAGACTTCTTCCCACATTCTCCAGCACACTTCCTTTGTTTCCCACTGTTGGTCAGAAAGATTTAACTCCTGTGTCAACGGATAATCAGAGTCCCATCACATTCAGCAACAGAGAGAGAAGCGACACACCTTTATCACTTCCTTCTTCATACTTCAAGATTAACACAAACACACTAGGTAAAGAGGACAAGCTTTGCTTTCCTGTCAGTTCTGAAACCAAACATTCAGACTCTTTACTGGCCAGTGAACCCATGAGAAGAAATGGTTTAGACTCTCACTGTCCTGGAGTTTCACAAAACGTCAGAAGCAAAGCCCAGATATTAGCTCTTCTGAAGTCCAGCTCAACTAACAGGAAGGATCTGCATGGTGAGATTCCAGGACACTTTCCTAAGATAGAACCACAGGGGTGTTTGAATATTATTTCTAAGCCAGAGGAAGACTATGCAGAAACACAGAGCATAGGGAATTTACGCTGTGAGCAGCAGTCAGAAAATCCTACAAGAACCACAAGCCGGTGGGCCAGGTATTTACCTTCCCAGAGATCACCTCCCTGTTCTGCTGCAGATGAGAATGATACAGAGGACAAACCAGAAGCCCAAGAAGATGTGAACATTTTTAACTTGTCTGAACTTTTACAAAAAAAGTCAGAGCTCTTTGAAACATGTTCCAAAAAGGGAGAATTACACAGTGAGGACAAGCCAGTAGATAATACTTGCCAATACTGGAATCAGGAGGATAACTTAGCACCTTCATTCTGTAAGAACAGCAGTGTCCTGGTTAGCTGCAGCAGTAAAGAGAATGCCAGTTTATTATCAGAATCTGACATTCAGTACAGTAGCAAAGTACCAGTTAATCAACATGAGAAGGTGTGGACTCGAGAAGGTTCTCAGGGGGCAGATGCGGATGCAGCATTGGAACCGGAGTATAGACCAGTGTCACCTTTGCCAGAAATAGGACATAAACAAACTGAAGTTGAAGCTTCTCTAAGTACCAGCTCTAGGATCTCTGACGACATTGCTGACATGGGTTCTAAAAGCAATGCTGATAGAGAAGATCTGAAAACTGTTCATAAAGCTGTGCAACCATTTTTGGAGGTTTCTTTTAATCTGAGCAACTTTGAGACCAGTGACACTGATGAGGCGTCACAAGAAGACAGCAGACTTTCCCAGGATTCAGAGCGGTGGGAGAAGGAAGCTGTGCTTACAGATGATTCTTGTGTTCAGAAGAGCTGTGAGGATATAGGCTGCCGAGAAATTGTAGGAAAATTGCCACTCCTGTCATCTACCGATGACGAGCCTAAAGAGGCCCTCCCTGCTGATGGGACTCTGTTGTCAGAGTTCTGTGATAGAACCTGTGTGGGTTTCAATTCAGGACCTCATGGAGATGTAAAAACTGGCAAAGCACTAGAGGGACAGTGTCATAGTGACACAGGGAGCAGTTTGGACTCGTCGCTGGAGTGGAGTGAGGATGTAGCAGGGGACAGCAGAGAAGATGCTAGTCAATCTATCCAAGGCAATGCAATTAATTGTGGTGGTGTTTCACCCTCAAAGAAACCCAGAGGTGTAAACAGAAGCTTATACAGTCCTTATCTTCTAACCGCAGTCACTGACCCAGCGCCTGAGAACAGTGACCTGCTCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278:ENSMUST00000196141:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.639
Domain overlap (PFAM):
C1:
PF103824=DUF2439=PD(33.8=43.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGCAGAGCTGTTGAACC
R:
AGGTGTGTCGCTTCTCTCTCT
Band lengths:
352-745
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