MmuINT0178911 @ mm9
Intron Retention
Gene
ENSMUSG00000038535 | Zfp280d
Description
zinc finger protein 280D [Source:MGI Symbol;Acc:MGI:2384583]
Coordinates
chr9:72208093-72211578:+
Coord C1 exon
chr9:72208093-72208148
Coord A exon
chr9:72208149-72209740
Coord C2 exon
chr9:72209741-72211578
Length
1592 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TAAGCAGCTTTATTTTTCAGTAA
3' ss Score
3.65
Exon sequences
Seq C1 exon
GAAACAGCAAGACATAGTAGAGCTGAAGGAGAGCCAGGAGCATCACATTCTGGAAG
Seq A exon
GTGAGGCTAAAGGAAAACTGAGTCTTGATCAAGTTTATTGAAACAAATTAGTACTTGAACTAAATTATATTTTACTGACAGCTGGCAAAGAGTTATGTGAGCTCATTACTTTTGTAATGACTTTTAATGAAAGTTCAAACTTTTATAAATTTAAGTTTCTTAAAGTATTGTACATAAAATAGTAGCATTTTGAATACTATACTAAATATTTTAAAATATTTCCTCTATTAGATGAAAAAAGTTATAAGATACTACAGATTATGAGATTCAACAGTTAAATTATGTAATTTCTCATTTCTATCTTTATATTTTATAGTAGGCTATTTACTAATCTGTTGAGAATAACATCCTACCCCACAAAAAAAGTAAAATATTGAGGCCTTATCAAGGTGTTTTTTGTTTTCACTAGTAAAATAACTGGCCTCCTTACATCTTTATCCTAGAGTTCTTAGCAAAGAAAGAAGTTAAACAAAATTAATTTTACAAATTTGAAAGGAAGAAAAATGTGGGTTTTATCTTTGACTAGTAAACATAAGAAAATGAGCTCAGAACAAATAATTGATGAGTTATAATTAAGATGGTTGGATGTAATAGTCAGGATCTTTCTGAGAGACTAATAACATGATTGCCTGGTACATGGACAAAAATGTCTTTTACAGTAGCAACATAAATGAGACATGGATGGAAACAAGCAAATGTTAACTAAACTAGCTTTCATGAAAGACCATTTTTCATATACTTTTTCCATGTAATCAATGATTTAGTTTAGTTGAAAATCTCAATGGGGTGTAGTTGAAAACTAACAGTATTTCCCCAAGGGTGGTCTAAATGCAGATCAATACAGCAAAGTAAATTGCAGAGAAAATGCTTTGTATGTTTAGTGTTCTCATAGTAGATAGCACCCGATATCCTCACTGGGGTAGCCACTCAACACGTTGAAAAAAAAGTGTTCAAATTAGGAATATATGGTAATTTGTTTTTGTTAAAGTAATCATCCTTAGGTCTACATAAGTGGCTCTACTATTTTATGATTCATTTAATTATTTCAGTTTACATACCAGGGTCAGAGAAATATGTGTACATACACCTAAATATGTATGTACATAAACATGTACTCACACATATATACATTCCTTGCATATGTTTTCAAGTATATGAGGTTATCCAAAATCAGGAAAATGTTTGCAAATGCTGATTTGATTTTATATAGGAAAGATAATCTAAGCATAGAGTATATAAAACATAAAAGAAATTAGACTTTTCCATAGATTGATTATGTTAGGTACTTTTACTGAATATTAAGGACACTTAATTTGATCCAGACACTGTCAGAGCTTGATCAGACAATAGCAGTCACTCCTAGGACAAAGACAGCTGGAAGACACTCAGTTTTCAGGTTCCTTTTTATTTGTGGCTCCAGCATTTCTTACGAGTTTTGCCTTAGCCTTCTCCCAACTTCTAAGAGAATAGCTAGGGCTTAGGGACCTATCTGTTTGGGTAGTAAAGTCTCTTTAACATGTTTTACATCTGAGTATGCCTTTATTGGGGTTACATGGTTTTATGAACGGCTAATAAGCAGCTTTATTTTTCAG
Seq C2 exon
TAAGCAGGATAAAGTTCCTTCATCAGAAGAAGGCACTGGGTGTGATGCAAGTGTATGTGAAGCTGCAGCAGCAACACACTGTGAAAAAGATGTAACGGTTTCAGATACAGAAAATGTAAGCAGCTCAAAGAACATCTTGAGTCATGATCCAGATGTTGGAACAGATACTATGGAAAAGGAAGAAAAAACACATCATGCTTGTCAGGAAATGGAGCTGAAGGTGGACCAGAGTTCAGAAAGCACAAATCCCACTGAAGCTGAACTGTCTTCAGAGACTCGTCAAGGTTTGCAGTTAACATCAGGGGATGTTGGCATTGATCAATTTCTGAGGCAAGGAGATGAACCTAAATCTGTGAATTCTGATGCTAGTGACCCAGGCAGTGTTCGTTTGGAACCTTTGACGCCATCAGAAGTACTTGAGTATGAAGCCACAGAGATCCTCCACGACGGTGATGATCCTTCAGCTAACACCAGTGACACGGTATCTGATCAAACAGGTGGCAGTCCTGGAGGAAGTAACCCTTGTAGAGCAGAGACAGCAGTAGACCTGGCAGATGGAGAGGAAAGAAGCTGAAGTGACATAGTCATTTCAAGTTTCATTCCCAACAGCACTTAGAACAATAGTGTCTGGTGAGCTCAGGAGTGCCGTGGTAAAGGGCAGCCGAGGGAGATCTGAGGAGGTCTGTCATACACTTCACCTGTGTGTTCAATCTTATTAAATCAGTTTACCAGTAATAGCATGGTTAGTATGAATTTCCACATTTAAAAAAACCTGAATAGAACTTTAGTGAAAACTAAGTTTGTCATCCAAAGGTCTCTTAGCACTTTTTGATAAAATCTTGTTTACCAATATGAAATTATTATAATACTAATTGCTATGTTCATCAGACTTTTCCAACTTTCATTAGTACTAAAAGTCCTCATCACCTGAATATTTCTTTTAGTAAACTTAAAGGAAGAGATTTAAAACCATGCATTTTTTAAAAATACCTTTAAACTGCCTATCAACTGTTACTGTTAATGAAGACTTTGTTTTTACTATGATCCTGGTGATAAAGCATGCTTAGAGTGCTAAATTGGCCTGTTGAGAACTTGGATGAATATAAAAATTAAGTTTGGATTTAATATAACATTCCAATCTGTCAGAAGCATGCAAACAGAATTTTAGAATCTGTGCACCTCCATACAAGTGTTAGCCTGCCAGGCTGTCAGCTTACCTTTATTAAACTTTCAGTGAAAGTGAAATTATGAAAATATAAGTTTATATTTGTGCTTTTAGTCAGTGTATAAGCTGTGCAGAACCCCACCTCAGCCCCCATGAACTAGTTGTATAAAGTAGAAATCTGTTATTGAAGCTCTTAAATAGCTACTATGCTTTTAATATTATTTCAATGATTTTTAGCAATAGACCCATAAAAATGGTCTGGAAACCAAACCAAAGTATGGTAGAATGTAGGCAAAAAGAATTGACCTAAAAACATGCCTCCGCATGTACTCAACTATGTTAAGGGACTTCCTTAATTGTAAAAGTTGAAACTTCAAATGGGACCCTAAAGCATATGTTTAAAAACAAAAAAAAAAAAGTTTGTGGAAATTAGCCTAATTTATCAGCTATTAAGTTGATTTTTAGATATAGAAATGAATATAACAAACAATTTCATTTTAAGTACTAATAAAATTTTATTTTAAATGCTGCATTTTTAATTCTTAAGATGTACTTTGAATTCTTAAACTGTCTAATTGAATGTTAAACGTTTTCAAGGCCTGTTAAAATTCTGTTGTATATAGTAGTTTTTGAGCAGATATTTGCAATAAAAACCTGTCTTTGAATAATTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038535-Zfp280d:NM_146224:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.615 A=NA C2=0.831
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGGAGCATCACATTCTGG
R:
TGATCAATGCCAACATCCCCTG
Band lengths:
345-1937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: