MmuINT0180358 @ mm9
Intron Retention
Gene
ENSMUSG00000021327 | Zkscan3
Description
zinc finger with KRAB and SCAN domains 3 [Source:MGI Symbol;Acc:MGI:1919989]
Coordinates
chr13:21485831-21486450:-
Coord C1 exon
chr13:21486386-21486450
Coord A exon
chr13:21485955-21486385
Coord C2 exon
chr13:21485831-21485954
Length
431 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
GTGGAATTTTACTCTTTTAGGGG
3' ss Score
6.61
Exon sequences
Seq C1 exon
TCACTCATGTGGGGCACTGTGGAGAAGATGGAGTGACAGCTACTAGGCTCACATCGGAATTACAG
Seq A exon
GTGAATCGGAGCTGTTTTCCCTCCTCAGCATTCTTTACTAGTAGTGTGCTTCTCCACACTCATCTCCATCCCTAGCCTCAATTCTCCACCCAGTTCCTAGTTGGGATGTGAATTTCCTTGTCCATTTCAAGGTTTGTTTACTGTTTAACTTTGAATAGCATTTTTAAAAATTTATTTAATCTTATTTTATGTGCATTGGTATGAGGGTGTCAGATCCCTTGGAACTGCAGCTACAGACAGTTGTGAACTGGCATGTGGGTACTGGAAATTGAACCCAGGTCCTCTGAAAGAATAGATAGTGCCCTTAACCACTGAGCCCCTCACACAACATTCTTGAGGTCTCACCATTTGGGGGTGGGATAGAAAGGTTGTGAGCTTGCAACCCAGATACTTACCTATTCCATCTCTTTGGTGGAATTTTACTCTTTTAG
Seq C2 exon
GGGTTGCTGAAAATGGAAGATGTAGCCCCAGTCCTTTCCCCCAGATGGACAGAGCAGGATTCATCTCAGATGAACCTCTACAAAGATGGAATGCAGGAGCACTCTGGCAGCCTGGTTTCCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021327-Zkscan3:NM_023685:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.540 A=NA C2=0.544
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=PU(95.0=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
CACTCATGTGGGGCACTGTG
R:
GAAACCAGGCTGCCAGAGTG
Band lengths:
183-614
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: