MmuINT0179455 @ mm9
Intron Retention
Gene
ENSMUSG00000074500 | Zfp558
Description
zinc finger protein 558 [Source:MGI Symbol;Acc:MGI:1921681]
Coordinates
chr9:18258498-18262039:-
Coord C1 exon
chr9:18261945-18262039
Coord A exon
chr9:18261497-18261944
Coord C2 exon
chr9:18258498-18261496
Length
448 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TACCATTTATCTCATAACAGGAA
3' ss Score
7.56
Exon sequences
Seq C1 exon
ATTTGGAGAAGGTACTTAAAGCCAAATGGCTAACTCCTAAGAATCTTATTTTTAGTAAAGAACATGATAACGGTGGAAAAACAGTACAACTGGAG
Seq A exon
GTAATGATTCTGGGTTTGTTTGTTTGTTTTTTTCCATGTTAGAACAGATAGAAAACTCAAGAAGTTATTACAAACAGTGTCACTAAATCTTAAGGAAATGATGTCTCTGTGAAGATACTGTGAAACTATACTTTTAGAGAAAAGATTAAGCCAACTTTAAATATATTTCTTCACTGAGAGGTCCCACAAATTTGCATATCATTAAGTATGAATCAGGTGATCGGTATTTAACATAAGTGATCCTAAATTTTTCAGAAATTTTTTAGTATAAGGATTTATAGCCAAATGTCTGTGCCTTTGAGCAAGCTCAGAATAAGCAGAAGTCATATGTAAGCTCTGAAAAGAACCAAACTGTTTATTGTGTCATAGATTTTTCTGGGAGAGGGAATCTTATTATAGCATGGCATAATAATAATATAAATTATAGTTACCATTTATCTCATAACAG
Seq C2 exon
GAAAGAGGTCATCATGGAATGAAAGTCAATGAGTGCAATCAATGTTTTAAAGTCTTCAGCACAAAATCTAACCTTACTCAGCACAAGAGAATTCATACTGGAGAAAAACCATATGACTGTACCCAGTGTGGAAAATCCTTCCGCAGCAAATCTTATCTTACTGTTCACAGAAGAATCCATAATGGGGAAAAACCTTTTGAATGCAATCACTGTGGGAAAGCATTTAGCGATCCCTCATCCCTCAGACTTCATGTAAGAATTCACACTGGGGAAAAACCCTATGAATGCAGCCAGTGTTTTCATGTCTTTCGTACCAGTTGTAACCTCAAAAGCCACAAAAGAATTCACACAGGGGGTGAAAATCAACATGAATGTTCTCAGTGTGGAAAAGCCTTCAGTACAAGGTCCTCGCTCACTGGACATAATAGCATTCATACTGGAGAAAAACCATTTGAGTGCCAGGAGTGTGGGAAAACCTTCAGGAAGAGCTCATATCTAACCCAGCATTTAAGAACTCACACTGGAGAGAAGCCCTATGAATGTAATGAGTGTGGAAAATCTTTCAGCAGTAGTTTTTCTCTAACTGTACACAAGAGAATACATACTGGAGAAAAACCATATGAATGCAGTCACTGTGGAAAAGCTTTTAATAATCTCTCAGCTGTGAAAAAGCACTTAATGACTCATACTGGACAAAAGCCCTATGGATGTAACCACTGTGGAAAATCTTTTACCAGTAACTCCTACCTGTCTGTGCACAAAAGAGTACATAATAGGTGGATATGAATTGTGGTGAAAAATTACTAAGGAAATTTCTGTGCAAAACCTTTGTTGATCCTAAGATAATTTGAGAGAATTTGCACCAGGTGTATACATTATCTATTGCTCTATATATCCTCCGCCCTACCCCACCCCCAAATTTGTGGTTTCAGACAAATACCTCACATTTTGTAGGTCAGGAATATGAAGGCACCTTAGTACTGTAGTTTTTTTCTAAGAACTTCTCATGAGCTTGCATTCAAGACTTCAAGCAGAGCTGCAGTTTTCTAAATGTGTTATTGAAGGAACCATTACTAGGATGTCTCACACACAGGCCTAGTGATTTTCCACTGGTTATTGACAGGAAACTGTCAGTGCTTCACCATGTAGGCCTCTCTGTGTGATTATATATCTCTATAATATGGCAAAAGAACAACTCACTACCCCCAAGTTCCAAGAGAGCCAGTTAAAAATGAGGTATCATTTATGACCTTGGCTCCAGAAGGTTGACTTTCACTTCTTCCCTGTTATACTCTCAATCACAGACCAACCTTGATACTGTGTGAGAGAAAACTACAGAATACCTGAGGGCCAGGAGGTAGCTTTCTGAGACGCGTTTGAGAAACTTGCCATGAAATTAGTGAAGAGAAATCAGCAATAGATCGTCATTCTTTTGATAAGTATGAAATGCCATTCAGTTAATTGTTAAATATGTATGCAAATATGTCTATGTGATAGGAGTTTTTTAGTTCATGTTGTATATGCCCCAAAGATATGTTGGGGAGATCTTGTGGGTAGAATAATGAGCGTGTGGCAATGGCCTCTAGTGATCCCAATCTTTTCAGTCTTTCTGGTGGGCAACAACTGAAAAATACAAGAAATTCAGAAAACTGTACAGCAAAGTGTTCACATTACTGACCACAAGTAGTGAAGTGCTCTGCAGTGATCATGGGAAATGTTTGACTGTTTCCGGTCTTGAAGAGGAATGATAATGGTTTCTGAAAAAACTCCTTAAACTCAAAGCTATTGGCAAGCCTTTGAGGTGTCCTCTAATGAAGGAAAAACTTTGCAGTGATTCCTTCTAAGCATATAAATTAGAGGCATACCTTAGGAAAGTGAAGGAATGCATGCCAGAGTGCTTTAGCTTCAGCTCTCTATTGAGAAATTGTGTAATTTATACTGAAAATGAAATGGATGAGTGTGGGGTTTCTCTCAGTAGGTAGTATCTTCAGGCTCGATTACCAGATTATTGATTTACAGTTTTGTTCTATAACCATGTATGTTTATATGTATGTCTTCACTGCACCCCCTGCCCACAAACAAGCCCTTAACATTTCCAAATCCTCAGTGCAGCGTTCTTGTAGCTTATCTTCCAAAGAGCTGGGGGTACTAGCACACAATACTACTTGTAGTACTTAGAGCTGGGGGTAATAGCACACAATACTACTTGTAGTACTTAGAGCTGGGGGTACTAGCACACAATACTACTTGTAGTACTTAGAGCTGGGGGTACTAGCACACAATACTAATTGTAGTACTTAGAGCTGGGGATACTAGCACACAATACTACTTGTAGTACTTAGGAGACTGGCAATATGGATTTTGAATTTGATGCCAGCCTGACAAGCTGACATAGTATTTTTGTCAGAGTATGGTACTTTTTGATGTTAATCCTTTTTATTCTTTCTGTCCTGCGAGTACCTGGTCTCCTTTTTGTCCTACTTAGAGCCAACAAGATGGCTCAGTGGGTGAAGTTGCTTGCCATAAAACCTGATCACCTCCGTTTGGTTCCCCATAACCCAGACAGTGAAAAGAGAGAATGGACTTCCAGATGTTATCCTCTGACACCAGCGTGCATGTCAGCCCAACAACCAAGTAAATACGTTTTTAAATATGTAAGCAGTACTAAAATAATACATCAGGATTTCTTGAAGTCTAAACACTGTTGCCATGAAATTTGGAGGCTGGAGGGAAAGCCTGACTTCTTACTCATTTTCTCCTCTTCTCACACTTTCTGTTGGTAACTAGCTGTAAGATCTGAAATAAGAACTAGTTTGGTTTGGTTTGGTTTGGTTTGGTTTGGTTTGGTTTGGTATGGTTTGGCTTGGCTTTTCAAGATGGGGTTTCTTTGTATAGCCCTGGCTATCCTGGAACTCACTCTGCAGACCAGGCTGACCTCAAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGAGATTAAAGACATGCGCTACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000074500-Zfp558:NM_028935:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.042
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=10.3),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
AACATGATAACGGTGGAAAAACAGT
R:
AGACATGAAAACACTGGCTGCA
Band lengths:
342-790
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: