BtaINT0147355 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019645 | TFDP1
Description
Bos taurus transcription factor Dp-1 (TFDP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001076029]
Coordinates
chr12:90751577-90752403:+
Coord C1 exon
chr12:90751577-90751743
Coord A exon
chr12:90751744-90752324
Coord C2 exon
chr12:90752325-90752403
Length
581 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
CGTTTTCTTCCTCTTTGCAGAGA
3' ss Score
11.23
Exon sequences
Seq C1 exon
GTTTGAGTACCTGTTCAATTTCGACAACACGTTTGAGATCCATGACGACATCGAGGTGCTGAAGCGCATGGGCATGGCCTGCGGGCTGGAGTCCGGGAGCTGCTCCCCCGAGGACCTGAGGGTGGCCAGGAGCTTGGTGCCGAAGGCGCTGGAGCCTTACGTGACAG
Seq A exon
GTCAGCGGCCTGGGGGGTCGCCCGCCTGCGGGGGCAGCAGAAGCAAGGGGGGCGGGGGCTGAGGGGGCTTGGGGTTCGGGGTGTGGGTGTGCTGCCTGTAGGGTTCTCAGCTGATCAGGGGTCCCGGAATCTGTCCTACTGCCCCTCTGGCCAAGCTGGGGGTCCTGGCGCAGGGTGGGGGCGCTCTGGTGGGAGGAGAGGCCTCCCTGTGCCCCCTCTGGTGAGCCCCGCGTTGGGTGGCCTGGGGCTCCCGAGCCCTGCAGGACGTCCATGAAGCATCTCCTACCTGCTGACCCCCGACGCCAGCGGTTGCCCCACTGACCCCTGCTGCCCACCTGTTCTTGGCGTTGTGGTCGTGCTCGGGAGGAGGGGCGGGGCGGGGTCTCGCCGGGAGGAGGGGCAGGGGAGCCGTCCCCTCTTGGCCCTTCCGTCCGTCTCCTGGAGGCCGTGTCCCTTCCCGGCCCTGCAGTGCCGTCGTCGCCACCTTCCCAAGGGGTGCCCGGCCCGGAGCCATCCGCCCTGTCTCAGAGTCCTGTGGCCTCTGCTTCGTGACGTTTGCCTCGTTTTCTTCCTCTTTGCAG
Seq C2 exon
AGATGGCTCAGGGATCCCTCGGCGGTGTGTTTGTCGCGTCGGCAGTGTCGACCTCTAACGGCACGCGGCTGTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019645:ENSBTAT00000026175:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.148
Domain overlap (PFAM):
C1:
PF087815=DP=FE(38.9=100)
A:
NA
C2:
PF087815=DP=PD(4.9=25.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTGAGTACCTGTTCAATTTCGACA
R:
TGCCGTTAGAGGTCGACACTG
Band lengths:
230-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development