MmuINT0118699 @ mm10
Intron Retention
Gene
ENSMUSG00000037791 | Phf12
Description
PHD finger protein 12 [Source:MGI Symbol;Acc:MGI:1924057]
Coordinates
chr11:78023027-78025086:+
Coord C1 exon
chr11:78023027-78023819
Coord A exon
chr11:78023820-78024960
Coord C2 exon
chr11:78024961-78025086
Length
1141 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTTCCTGCTCCGTCCCCAGATG
3' ss Score
12.16
Exon sequences
Seq C1 exon
TGGCTCTGTAGTGTTGTTGCGCTCCAGTGCAGCATATTGAAACATTTATCTGCTAAGCAGATGCCTTCGCCTTGGGACTCTGAACAGACAGAGAAGGCTGATATTAAGCCTGTTATTGTGACTGACAGCTCAATCACCACCTCCCTGCAAACCGCTGACAAGGCACCTCTTCCTTCCCACTACCCTTTGTCCTGCCCCTCAGCAGTGAGCACCCAAAATTCCCTGGGCTGCTCTCCACCCCACCAACCCCCAACCCTAGAAGACATCAGCTGCAGTTCTTGTGTGGAAAAGTCCAAGAAAGCCCCTTGTGGGACTGCCAATGGGCCGGTGAACACAGAGATAAAAGCCAATGGCCCACACCTCTACAGCAGCCCCACTGATTCCACGGATCCCCGGCGACTTCCTGGCGCCAACACCCCTTTACCAGGCCTCACACACCGGCAAGGCTGGCCCCGGCCCCTCACGCCACCATCGGCTGGGGGACTTCAGAACCACGTCGGCATCATTGTGAAGACAGAAAATGCCACTGGCCCCAGCTCTTGTCCCCAGAGGAGTTTGGTACCCGTCCCAAGCCTGCCCCCTTCCATTCCCAGCTCTTGTGCCAGCATCGAGAACACCAGCACTTTGCATAGAAAGACTGTCCAGTCACAGATAGGACCTTCGTCGACAGAATCGAGGCCTCTGGGCTCACCCCCAAATGCCACCCGGGTGCTCACTCCCCCCCAGGCTGCAGGAGACAGTATCTTGGCCACAGGTGCCAACCAACGATTCTGCTCACCAGCGCCATCATCAG
Seq A exon
GTGAGTTTCAGTATTCCAGTATTCTCTGGAATGATCCTGTGTTAATAGCACAGACTTAAGAGTCCGAAACAGTTTATCCCTGGGAATACTTGAGGCCTTTCATCTCTGTGTCAGTGATCCATCTTCTGCATCTTATGGCAGATGAAAGGCTGTGTTAGCTTATTCCAGCCATAAGTTGGGGCTGTTCTCACTAATTTAAGTCACTTCCTTAGGGTGGCCTGCCAGGTCAGTGGCAATACTGGAACTGCAGTTGGGTCACTGGCCCCTCCTCTCACCTTCTGGACCTAGTCTTCTGCCTGTCTGTTCCATCACCTCAGAAGGCACATGCTTTCTGGAACCACTTGGGTCAGCCTGAGGCTTGGTGTGTACATTCACATACGAGTGATGCAGATTCTCAGAGCCAGCTCATTGGAGGAACATTCATGTTCAAGAAGCAGGGACAGAAAGCAGCATTGCCTTTCTTAGAGTTATAAAGTGGGATGCCTACAGAGGTTGGTCTGGCCCAAAGGCTTGCCCTTGGCCATATGTCTAAAGAGAATCCTGTAGGTCTGTACTTGACCCAGTATAGACTTGTTCTCTCAGCTGTCCCAGGCAGCATTTGGACCCCGAGCTTGCTGATCCAAGCATCTGAACCAGGTTTCATAAGCAGTTGTCACCTGTGTGTTCCCACATGAACTGACGCCATCCTCCCAGTCAGCAACCAGGTGCCTGTGATTTCTTTGCTTGGAAGCCCCTGGCCCTATTTCCAACTCTAATGCTAGAGTGAGTAAATTCTGCAAACTGACATTTGTCCGTCAGCAGATAGGAACTGTAGGTGCTGTTTCTGTAAGAGTAGAGGTAGCAGAGAGGTAGGTGGTCATGAACCAAAGAATAAAGCAACCTCAGCACTTGGCCCCAGAATAGTAAATTGCCACAGTTGTCAAGTGCTCTGGAAATCCTGCGTGCCCGGGTATGTTATTATTCCATCTACCCTTCCTCACCACACGTTTTTAGCTCTAGGAGTTCCAGAGCCTGTGGGTTGAGAATCAAGAAGGGAACATCACCTTGGGTCCGAAATCCAGAACTGTCTCAACAATGGGGGATTGGACCGGTGGGTTTCCCTCAGGCGACGTAAGTAACAGTCTTCCTGCTCCGTCCCCAG
Seq C2 exon
ATGGCAAGGTCAGCCCCGGCACGTTATCCATAGGAAGCGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACCTCACCAACTCACTTCGAGCATTTATGGATGTCAACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037791:ENSMUST00000049167:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.808 A=NA C2=0.209
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCAGAGGAGTTTGGTACC
R:
CGAAGTGAGTTGGTGAGGTCC
Band lengths:
354-1495
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