MmuINT0180544 @ mm10
Intron Retention
Gene
ENSMUSG00000042408 | Zmym6
Description
zinc finger, MYM-type 6 [Source:MGI Symbol;Acc:MGI:106505]
Coordinates
chr4:127077383-127078546:+
Coord C1 exon
chr4:127077383-127077600
Coord A exon
chr4:127077601-127078407
Coord C2 exon
chr4:127078408-127078546
Length
807 bp
Sequences
Splice sites
5' ss Seq
GTGGCAAGT
5' ss Score
2.6
3' ss Seq
TCCTTTATATTATGTTTTAGGCG
3' ss Score
10.34
Exon sequences
Seq C1 exon
GTGGCAGCTCATCACGTGACCGGCGGCGGGCTGCGCCGCGGTGGTGCCGTAGCATCCTCAGGCTCGCTGCAGTTGGCGGCTCGCGCGCTCCGTTGGAGACTGAGTTCCTCCTCTGGCCTTTGGGGGACAGGCTGGGGAATTCTGGTTGCGAACGGGAACGCCGGAGAGCTTGCGACATTCAGAGGAGGGATACGCGCCTGTAGAGTGTTACAACTGTG
Seq A exon
GCAAGTGGTGGAAAGTTCTCGACCCGGCTTCGCAACAGGGTTTTAAAAAACCTGTTGTTTCTATGGCTGGCTGGAATTGATGACAGGCCTTTTGCGAGGGTTTCCTTTATAGCTTGGCTTACATTTGTACTACCGTTTGGGAATCTGAAGAGAGCCCAGACAGGGGTTTCTAGCAGCCATTCTCAACCCTCACAGGGTCGCATATCAAATATTTACATTACAATTCGCAATTAGCAAAATTACAGTTATGACGGAGCCACGAAATAATTTTATAGTTGGGGGTCGCCACATTAACCGAGTTTATGAATGTTGAGAATCACTGGTTTATAGGAAGACGTTAGGGGGAGTTGCCTCCAGAATGACCAGTTGGCCCACCTCTAAATGGGAACCTAGCGTTCTAGTTGTGATGACGTCTGAGGCTCTGAAGTGGCTTTAGGATGAGAAATCGGTTCTTATTGTTAGTGCAGGCTGAGGTAGAGGCAAAGGTGAGGCCTCACTTGGAGCAGACATGAGTCACATGTCAGTGTCCACACAATCAGAAATTAAGTACTGAGTCCAGCTGTCCACTTGCTAGGGTCCTCCTGTGGCGTGTTCAGCCAGTCTGTATCGCAACAACCTCCAATATAGTGAAGACCATAGTGCTTGTCTAAGACTTTTCTCATTGGAAGGTAGCTAATCCAGGAGCAAAAAGAACAGTTAGTCCTAGTCCCAGAAGGGTGTTGCTCAAATGCTCGATCCTGAAGCTATTAACATGTTAGTATGAAGGAAAACAAAACCCAAGTACCAATCCTTTATATTATGTTTTAG
Seq C2 exon
GCGTCATCTTAGTTTTAGATGGGATAAGAACTCGGCATAAGCACTTAGAATGAAAGAACCTTTGGATGGTGGATGTGACAAAGCAATGGCACAACAAGGGCTTCTGGACAGAATTAAAGAAGAACCTGATGATGCTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042408:ENSMUST00000046751:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.300
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCAGCTCATCACGTGAC
R:
TGAGCATCATCAGGTTCTTCTT
Band lengths:
356-1163
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