MmuINT0159249 @ mm9
Intron Retention
Gene
ENSMUSG00000038482 | Tfdp1
Description
transcription factor Dp 1 [Source:MGI Symbol;Acc:MGI:101934]
Coordinates
chr8:13372466-13373102:+
Coord C1 exon
chr8:13372466-13372617
Coord A exon
chr8:13372618-13372935
Coord C2 exon
chr8:13372936-13373102
Length
318 bp
Sequences
Splice sites
5' ss Seq
CAAGTTCGT
5' ss Score
2.69
3' ss Seq
ACAGTGCCTTTCCCCAACAGATT
3' ss Score
9.66
Exon sequences
Seq C1 exon
CAAATTGCCTTCAAGAACTTGGTGCAGAGAAATCGCCAAGCTGAGCAGCAGGCCCGCAGGCCGCCTCCTCCCAACTCTGTCATCCACTTGCCCTTCATCATTGTCAACACCAGCAGGAAGACAGTCATTGACTGCAGCATCTCCAATGACAA
Seq A exon
GTTCGTCCTCAGTGGGCCCTCTAAGTGCAGCTCCTCAGGGGAAGAAACAGATACTTGGTTATCAGGGTTCAGTCTTACGGCTGCTTAGTAACAGCAGCTATGGTCTCTGGTGGTCCTGGCACCCATGCCACGTGCAGGCAGCACTGTGTCCCAGCCCAGGGCCATCACTATGCAGTGACATGTCTTTCATTCCCTAGTTTGAACTGTTTTAGAGAAATTCAGTAGTTATGGGGTCTGGGATGGAGGGTGGGAGTGGGGGGTGGATTTACTGCCTGCTCTTGGAAGCTTCGTAATCCTCACAGTGCCTTTCCCCAACAG
Seq C2 exon
ATTTGAGTATCTGTTTAACTTTGACAACACGTTTGAGATCCACGATGACATTGAGGTGCTCAAGCGCATGGGCATGGCATGTGGGCTGGAGTCTGGCAACTGCTCTGCTGAAGACCTCAAGGTGGCCAGAAGTTTGGTACCAAAAGCTCTAGAACCATACGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038482-Tfdp1:NM_009361:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087815=DP=FE(34.5=100)
A:
NA
C2:
PF087815=DP=FE(38.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATTGCCTTCAAGAACTTGGTGC
R:
CTGTCACGTATGGTTCTAGAGCT
Band lengths:
318-636
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: