MmuINT0180831 @ mm9
Intron Retention
Gene
ENSMUSG00000036721 | Zscan12
Description
zinc finger and SCAN domain containing 12 [Source:MGI Symbol;Acc:MGI:1099444]
Coordinates
chr13:21454689-21455920:+
Coord C1 exon
chr13:21454689-21454741
Coord A exon
chr13:21454742-21455448
Coord C2 exon
chr13:21455449-21455920
Length
707 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
AACGATGACTTATCCCTTAGGTC
3' ss Score
7.98
Exon sequences
Seq C1 exon
GACTTCCGGTTCCTGGGAGGGCTGGATTCCCTTCCCTGCGCAGGAGCGACGCG
Seq A exon
GTGAGCGAGCTCGTGCTCCAGGCGGGGGGAGGGTGCTCCCTGCTACCTAGACTCTCGGCCTTAGAAAGATGCTTGGAACCGGGGGAAAGGCCACCCGGGCTGCGCTGCGGCTGCCTATGGGTCCCCCTGGGGCGCGGAGCTGGCCCGGACCTAGGCACGCTGCAGAACTTTAAGTTAGAGTCACAGAACTGGAGGGGCAGGAGAAAAGCAGAGCACCCTCCCCAACTTCTAACCTTTATGAGTGGTTAAGTTCCAACTAAAGCCAGTTGGGAGACTGTACTATGTATATGTGATTTGTGCCAGGTACGCAGAAAAAAAAATCAAAAGCAGCAAGGCAGGCGTACCCTACTCTTGTACTCTTTCCGTTATTTTTGGTGGTACTGTTAGTTGAACTTCCCACCCGCCAGGCAGCGGTTGCCCTTCCCCAACGCTATCTGCTAATTCCAAAATTTTTTGTTTATTTCAGTTAGTTGTTGTTCACTTTAGGAGTAAGTGGAGGTAAGTTTCTTCCCAAGCTTTACTCCCTGAAGTCCTGAAACAATTTGACATCTTTTTCACTTTTGTCTATTTTTGTGAAAGTCCACGTACAATCCAGTCAATACAGTAGATTAACCGGAGGGCAGCTTTTCAACTCTCCCACTTAACTCTTAGAATAGGCGGTATTTGCTTATTGTAGTTCGTGTTAGTAACGATGACTTATCCCTTAG
Seq C2 exon
GTCCACTGGGTAAGAAGATTTACCAAGGAGTTATTACTTGAAAGATTGATACATCTTTTATCTAGCTACGATGACATCTACTAGTGATACCAAGGTCTGTAAGAACCAGGGTGGACTTTTGGAAATAAAAATGGAGGAAGAATGTAAGTATACCACCAGACAAGATAGGAACCTACAAAAGAACACTTATAACAGAGACGTCTTCCGAAAATACTTCAGACAGTTTTGCTACCAGGAAACTTCTGGACCCCGGGAGGCTCTGAGCCGGCTGCGCGAGCTCTGCAGACAGTGGCTGCGGCCGGACTTGAACAGCAAGGAGCAGATCCTGGAGCTGCTGGTGCTGGAGCAGTTCCTGACCATCCTGCCAGGGGAGCTGCAGGCCTGGGTGCAGGAGCAGAATCCGGAGAGTGTGGAGGAGGTGGTGACTGTGCTGGAGGATTTAGAGAGAGAGCTTGATGAACTAGGATACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036721-Zscan12:NM_016684:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.030
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=PU(97.9=70.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTCCCTTCCCTGCGCAG
R:
GGATCTGCTCCTTGCTGTTCA
Band lengths:
355-1062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: