MmuINT0159245 @ mm9
Intron Retention
Gene
ENSMUSG00000038482 | Tfdp1
Description
transcription factor Dp 1 [Source:MGI Symbol;Acc:MGI:101934]
Coordinates
chr8:13369459-13370646:+
Coord C1 exon
chr8:13369459-13369580
Coord A exon
chr8:13369581-13370480
Coord C2 exon
chr8:13370481-13370646
Length
900 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CTGTTTTTCTGGTGTTTAAGGAA
3' ss Score
7.98
Exon sequences
Seq C1 exon
GTGATTGGCACGCCTCAGAGACCGGCAGCATCCAACACTATTGTGGTAGGAAGCCCACACACTCCCAACACGCATTTTGTGTCACAGAACCAGACGTCTGACTCCTCACCTTGGTCTGCTGG
Seq A exon
GTGAGCACCCCCACCCCAGTTTGGCAGCTGCTGAGAATGTCCCCTTTGTCCTCTGGCCATGTGTCACATGGTCTGTAGTGGGGGTCCCTGAGCAGAGAGAGCGCAGGGCTCCCATCTCACCTCTGACTGGGCCACAGAGAACACCGGTCACTAATACGACACAAACGCTTAGAAAGTGTCAGAAGATCTGATCTCTACCAGGTCCAACACCAGGGCTCTATCCCATGCATGGTCTGTCCCTCCGAGGCAGTACTGCCACTGAGACTGTAGCAGACGTGGAAGTGACTGACTCTCTTTAAAGATCACCAGTGTGTCACATTTTAAAAACTGTTGTGAAACCCTGTCTCCCTTGCTTCAATTTAAAATCATCTGTGCCCCAAACTCTGCAGAGAAACGTAGTGACTGTTCCCAGTGTGACTTAGTGAGGGCGACACAGTTGCTGTGCCTCCCGACCTGAAGCTTGCACCATGGTTCCCATTTGACACATGTCCATCAATCTAAGCATCTGCCTTATGTCATGGTAGCTTGCCAAAATTACCCCTGGAAATTCCTAAGTTTACACTAAAATGTGCCGTGCTCTGATGCCAGCAGACGCCTTTAGAACAGTGGTGCCTAGTGTGTGGTCCGGATCAGACCCATGCTGATTTCTGCCCTTCGGATGTCTGTCCATCTTCCCTGACATTTAAAGGCACAGGTGTGTGAACTGGCCTCATACATGTTCTTTTCTGACCTGAGAAACATTGATACTTGCCAATGTCCTTGATATATTAGGGCGGAGTCCCTGCTGCCTATGGTGGGGCTGTGGGAAAAATGGGCCTCTGCAGCCTAGGCCTTCTCTGAAAGTGACTTTGCTTCTGGCTCCCGTGACTACTAACGGTATCTGTTTTTCTGGTGTTTAAG
Seq C2 exon
GAAGCGGAACAGGAAGGGCGAGAAGAATGGCAAGGGCCTGCGGCATTTCTCCATGAAGGTGTGTGAGAAGGTGCAGAGGAAAGGAACCACCTCCTACAATGAGGTGGCTGACGAGCTGGTGGCAGAGTTCAGCGCTGCCGACAACCACATTCTACCAAACGAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038482-Tfdp1:NM_009361:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.927 A=NA C2=0.291
Domain overlap (PFAM):
C1:
PF059717=Methyltransf_10=PD(18.4=34.1),PF063127=Neurexophilin=PD(40.6=95.1)
A:
NA
C2:
PF0231915=E2F_TDP=PU(56.6=83.9)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGGCACGCCTCAGAGAC
R:
TGATTCGTTTGGTAGAATGTGGT
Band lengths:
286-1186
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: