MmuINT0003947 @ mm10
Intron Retention
Gene
ENSMUSG00000051278 | Zgrf1
Description
zinc finger, GRF-type containing 1 [Source:MGI Symbol;Acc:MGI:1918893]
Coordinates
chr3:127611784-127613466:+
Coord C1 exon
chr3:127611784-127611911
Coord A exon
chr3:127611912-127613342
Coord C2 exon
chr3:127613343-127613466
Length
1431 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
TCTGAATTGTTTCTTTTTAGGTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
GTCCGAGTGGTTGGCGTTACCTGTGCAGCCTGCGCATTCCCGTGTCTGAATGACCTTAAGTTCCCCGTGGTTGTGCTGGATGAGTGCAGCCAGATGACAGAGCCAGCCTCCCTTCTTCCCATTGCAAG
Seq A exon
GTACGCTGGACGGCTCTTCCCAGCAGTGCACACAAGTCAAGTATGTCAGACATTCCCTGAGTCAGACTCTCCGCAAACATGTCAGAAGTTTTAGCAATTCAGTTACTAACATTACTTTTGTAAATAACAAACTTTTTGAAGTAAATATGTCAAAATTTTGTGAGCTCATAGTTTAGCCATTGGACTTACCTCACAGTCTTTAAAACTATTATCATACTACTGGTGGCTTTATATATAAACTATTATAGCATTCCCCTTATTTGTCAGCTAGATTAATGGTTTCTACTCCACTGGGCAGTGTTATTCAGTTTCCTTTCTTTTGTATGATTTGAATGCTTTAGCTTCTGAAAATATTTTTTAGTTTATGAGAGAATATGTTGAAAATGAAGATTTGTCCCCAGAAACTAAGCTGTTATAACCATTAGAAAGTTGTGCTTTTAAAACATCTTTGGAGGCTGAGATACAGGTCAATGGATAAAACATGTTTAATGTGTTACCTGAGTTTCGTCCCCAGTACCATGGAGAATAAAGTAAGTCATGTCTTAGGGAAGAGTCACCACAGTGAGACTCGAGACCTTGCTCCTCCGCGGTTGTCAGGGTTTGCCTGGGACCCTGGGCGTGAGGTTTTAGCCTTTACTGAGATGATACTGGGCAGTCAGGCCGGCTTGGTCACTTCCCAGAAGACAGGTTTGCAGGAACACTGAGTACCGGGGAGTAATGCAGTTGTGCTGTATTCTGAACACATTGTGACCATGTGTGCTGATAGCTGTGTGCGCCTGTGCAGGACAGAGGGAAACAGCCCGTGCCTTCCTTCCGACCTCCTCACATTCTTTTCTTCCTTTTGTTATTTTAAAAATGTGTTTGTTTATTTTATTTCCAGTGTTTGAGTCTTGCTCGTGTCTGTGTGTCATGCACATCCTACATCTGGAGTGCAGTTATGGACCATTGTGAGTTGCCCTATGGGTGCTGGCATTTGAGCCTGGGTCCTCTGCAAGAGCAAGTGCTCTTAACCACAGAGCCAGCTTTCCAGCCGCCTTCACCTTGTTTTTTGAGGCAGTGTCTCTCACTGAATCCAGAGCTCACTGTTTCACTAGACTGGCCAGCGAGTCCCTAGAGTCCTCCTGTCCCTAAGCGCCCGGCACTGGCATTATGAATTTGTGCTGCCGCCACTGTGCCTGGCTTTCTGTGAGTGAGAGGGATGTGAGCTCAGTTCTTGAAGGCACTTTAACCACTGAGCCATCTTCCTAACCCGAAGACTCTGCGGTAACTTTTCAAAGCCTTCAGCTTGCTAGTTAGCACCACTGAGCCCCGCTAGGTCTGAGGACTTGTCCTGCCTTTGCATTTGGAGAACACATTTTGGAACGTACAATGGATGCTGTCTGTTTATCTTTTCTCTTTGCTTAGATTAATTTCTGAATTGTTTCTTTTTAG
Seq C2 exon
GTTTCAGTGTGAAAAGCTAATTCTTGTTGGAGACCCCAAACAGCTGCCTCCTACAATTCAGGGTTCTGATGCAGCTCATGAAAATGGACTGGAACAAACTCTCTTTGATCGGCTTTGCTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051278:ENSMUST00000196141:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.138
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(17.9=100)
A:
NA
C2:
PF130861=AAA_11=PD(9.4=52.4),PF130871=AAA_12=PU(5.9=26.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTCCGAGTGGTTGGCGTTAC
R:
AGCAAAGCCGATCAAAGAGAGT
Band lengths:
247-1678
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