MmuINT0179461 @ mm10
Intron Retention
Gene
ENSMUSG00000045519 | Zfp560
Description
zinc finger protein 560 [Source:MGI Symbol;Acc:MGI:1915280]
Coordinates
chr9:20345136-20349663:-
Coord C1 exon
chr9:20349581-20349663
Coord A exon
chr9:20349160-20349580
Coord C2 exon
chr9:20345136-20349159
Length
421 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTTATATTTTTAATCAACAGCCA
3' ss Score
6.46
Exon sequences
Seq C1 exon
ACTGGGCTATACAACTTAACCCCAGAGGGACAATGTTTCAGCGGGATATTTTTCAGTTAAAAATGTCAAATGAGATACAACTG
Seq A exon
GTAAGAGTCACAAGAGATATTTCATATTTTTCATTGAAGTAGACTGGGTATTTCATATAAATTTTACAAAATGCTTACAGATAAAGAGGTATTAGAGAAAAATAGCCTGCATCCACAGGAGTAGTATCTAAAAAAATGTCCTAATCTTTGTTTGAAACTTGAGTTCCCATTAGCACATAGTCCTACCTATAGCCATAGACACTGGGCTTTTAAAACAAGTTCCTGGAAGCACAGGAAGCCTTTCAGAGTTAGAACAGATGGCACACGATTCTTGCAATAGGATTTTTTCATCCACATTGAGTGAAATGCATGTAATTAAAATGGGAGAAAAAATCATCCTCATCATGTTCTTAGATAAGTGAAGTATACTAATACATTTGAAGTCATTTTAATATCTTCATCTTATATTTTTAATCAACAG
Seq C2 exon
CCAAATAGCCACAATGGAAAGGAGCTCTGTGACATTAAGCCACCTGGAGAAATCATCAAAGAGCCTCCATGCAGTCTGACATACATAGGTATTGAAAACACAGGGAACATTTATGATTGTGTTCAGTATGGACAGCTCTTTCCTGTTTGTCCTAAGGAGACTTCCTCTGCAGACACTGGTCCTGGATTACGCCAGTATGGAAAAGACTTCAGTATGATTGCAAGTACAGCTTACCAGACAACATGTGTACAAAGCAAATTCATTGAATCCAGTGAATTTCAGCAAGTCTTTGATAGTCAGTCATCCCTTCAGAGGCCTGGGGGAAGTCACAGTGAAGACAAACTCTCTGAGTCGGTGCAGTGTGGTGATACTTTTAGTCCAGCCTTGAGTCATGCTGAGAGTGCTCAAACATGCACTGGAAAAAAATCCTATGAATGTAAGGAATGTGGGAAGAGTTTTAAATATTCTGCCAACCTTAATATTCATATGCGTACTCACACTGGCGAGAAACCTTACCAATGTAAGGAATGTGGGAAAGCCTTTTCTAGGTGTTATCCACTAACTCAGCACTTAAAAACTCACACTGAAGAGAAGCCCTTTGAATGTAAGGTTTGTGGGAAATGCTTTAGAAATTCCTCATGTCTTAATGACCACTTTCGGGTTCACACTGGAATAAAACCCTATAAATGTAAGGACTGTGGCAAAGCCTTTACCGGGCGATCTGGCCTTAGTAAACATTTACCAACACATACTGGAGAGAAGCCTTACGAATGTAAGGAGTGTGGGAAAGCCTTTCCTTCAACCTCAGGCCTTATTAAACATATGAAAAGTCACATGGGAGAGAGACCCTTTGAATGTGATCACTGTGGAAAGGCCTTTGCTTCTTCCTCAACCCTTATTACACATTTGAGAACACACACTGGAGAGAAGCCCTTCGAGTGTCAAGTCTGTGGGAAGGCATTCACATGTTCTTCTTATCTTCGAATTCACATGCGGACTCACACTGGAGAGAAGCCCTATGTATGTAAGGAGTGTGGCAGAGCCTTCACTGAGCGCACAAGCCTTACTAAACATTTACGAACACATACTGGAGAAAATCCCTTTGAGTGCAATATGTGTGGAAAAGCGTTTGCATGTTCCTCCTACCTTCATAATCACATACGGACTCACACTGGAGAGAAACCTTATGTATGTAAGGAATGTGGGAAAGCCTTCACTGTTTCTTCACATCTAAGTAAGCATGTAAGAATTCACACAGGAGAGAAACCCCATAAGTGTGAGGAGTGTGGGAAAGCATTCACTGTGCGCTCTGGCCTTACAAAACATATACGAACTCACACTGGGGAGAAGCCCTACAATTGTAAAGAATGTGGGAAAGCGTTCACTACATCCTCAGGCCTCCTTGAGCATAAAAGAAGTCACACAGGAGAGAAGCCATATGAATGTGACCAGTGTGGAAAGGCCTTTGCTTCTTCCTCCTATCTTATTGCACATTTGAGAATTCACACTGGAGAGAAGCCCTTTGAGTGTAATGAGTGTGGGAAAGCTTTTACTTGTTCCTCCTACCTTCATATTCATATGCGGACTCACACTGGAGAGAAGCCCTATGACTGTAAGGAGTGTGGGAAAACATTTGCTGTTTACTCTCATCTAAGTAAACATGTAAGGATTCACAGTGGAGAGAAAGCCTACACTTGTAAAAGTGATGGAATAGCCTTCAGTCGTTCTCATCGTACAGAACACTTGAAAAGTCTTGAGATAAATTCTTTTGTTGGAGGGAATGAAGAAACTGCTTTAGAAAGTTCTATTGCTTTAACGGTGCATCCAAATTCACAATGGCAAGAAAGCTTATCAGTGTAAGCCATTTGTAAAGTGATTGTTTATATCCTAGTTGTTGGTTTTCTGTCTAAACTACACCCCCACAGTTCCTGGCAGCAGCCAGGTATGCTCCTCCCCACAGTTACCTGGCAACAACCATGTAGGCTTGGCCCAGTATAAAAGGAGCTGCTTGGTCCCTCCTCTCTCTCTTGCCCCTTGTGCCCCCTCCCATTCCCTCCCCCCCCTCCATGTGGCCATAGCTGGACTCGACATCTCTACTCACTCCTTCTCTCTGCCTCTCTCTGCCTCTGCTACCGTCTTAACTCCCCTCCTCATGCCCTGAATAAACTCTATTCTATACTATACTGGCGTATGTCTGGTCCCTCAGGGTGAAGGGATACTTCTGCATGGTCCTCCTGTGTCACCCCTTTCCCTCACACCCCACCAGAACATACTCCTATAGCTCTTTCTCTTTTTATAATCACAACACTAGTTGACTTCAAAGACATAAAAGAAATCATGTTGCAAAGTTGCCTCATGAGGATTAAAGAACGGAGGAAGTGATCAGAATGCTCAAAACCCAGCTCACACAAACTCACTTTGAAGCTTCACAAAGTCACAAACATGGACAGTCTTTGCTGTTTCTAAGGCTTTTTATAAGTATGTGAGAGAAATTCTGTTGACAGACAATGTGGAAAATTGTATTTTGCTCAGTTCTTTGATGATTACCCACAGTACAACAGTGGAGGACTTTGTGAACGTAAGAAATGTTGGAAAGTAATTATTTGCATTAGTCATCAACATTCAATAAAGTGATTCACATTTGGAAAACTTCATGTATAGAATATTGGGGATTGTTTGTATGTCTTAAGATTTTATATACTAGTAGAAATGGCTTTCTTGGTGGTTTTATAAGCTTATTTTGGCTGTTTTTTTGCATTTTCAATTTTTGAGATTTTTAATATTTGCACATAGTTTTAAGATGTACAAGCTTCTATAGAATATACTATGAAACAATTATTAGGCTAATTAAAATGTGATACAGTAATTTGGTTTTGGTATTATGAAGCACTTTTTACTATCAGAAATTTCAGGTAATTCACACAATTAACTGTATTCACTAATTGTACTTTTAAGTTGTTCATTTTATAATTGAAAGTTTGTAACCTTTATCAGTAACTCATAAACATTAACTTGTTAAAGACAGGCTCTCACTGTTTAGCTCTGGAACTCACTGTGTAAACTAGCTTGGCTTTGAACTCACAGAGGTCCTCTGCCTCCCAAGTGCTGGGATTAAATGCATACACTGCCATGCCCAACTATACTTCATATTTAAATAAGATAATACATTGTTTTTAGTTTTTATGTGTCTGACTTATTTTCACCTAACAAAATGTCTTCTAGTTTCATCACTGCTGTCTTGGATGACAGACAGACTTTTCTTTAAAAAACAAAAGGGGGTAGACATTTTTTTATGCACAGACTCAAAATATTTGTATGTATGTGTATATGTATTGTGTGTTTGCATGCGTCTCTGTGTGTATGAATGTGGCCTCTACAGCTAAGAGACTTGGGTTTTATCCTAGCTTTCCACTTGTAGACAGAGTCAATTTATTATCTTTCCAGCCCCTATGAAAGTTTCTTTACACAAAAGAACACTTAGATTGTTTACATACTTTATTGTTGGTACTGTTACATTGAATATATATTACAGGTATCTCTTTAAGCATTCCTTAAGTGTATGGTCATAATCAGTTTGTTGGAGTATTTAGTTGGTGTAGTTATAGTTTTATGAGGAGTTTTGATGCTGCTTTCCAGATAACTCTACCAATGTTTCTTTCATTCAAAACAGAAATATATGCAAACAGTTTTGTCTTTCTTGTTTACATGTCATTCCTTTTTCTTATTTAATTGTCTCAAACTTGCAATATTATGATGAATATAAGTTCCAAGCAGGGTTATTGTTGTACTTGATCTTAAAGGAATAGCTCTGGACTTGCACTGAGAATGATGACAGCTACTGGCTTGTCATATGTATACAGTCACTAGCAAATTAAGGTGCAATCATTTCTGTATCCAACTTGAGAGTATCATGAAAGGATGTTAACCTTTTAAGTGCCTTTTATATTTGTAACATTTTCTTTTTTCTTTTTTACAACTCATTACCTTTTGTTTTTTATTAAACTAATAAAATTTATTTTAACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045519:ENSMUST00000068079:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.040
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.0),PF134651=zf-H2C2_2=WD(100=3.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACAATGTTTCAGCGGGAT
R:
AGACTTGCTGAAATTCACTGGA
Band lengths:
346-767
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