BtaINT0147351 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019645 | TFDP1
Description
Bos taurus transcription factor Dp-1 (TFDP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001076029]
Coordinates
chr12:90749803-90750373:+
Coord C1 exon
chr12:90749803-90749968
Coord A exon
chr12:90749969-90750229
Coord C2 exon
chr12:90750230-90750373
Length
261 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
ACCCCCCGCGTCTCTGCCAGGCC
3' ss Score
8.82
Exon sequences
Seq C1 exon
GAAGCGCAACCGGAAAGGAGAGAAGAACGGGAAGGGGCTGCGGCACTTCTCCATGAAGGTGTGCGAGAAGGTGCAGCGCAAAGGGACCACGTCCTACAACGAGGTGGCCGACGAGCTGGTGGCTGAGTTCAGCGCAGCCGACAGCCACATCCTGCCCAGTGAGTCG
Seq A exon
GTGAGTGCGCCGGGCAGGCCGCCCTGCCGCCTCCCACGGGTGCAGAGGAGGCCCCGGAACCCTTGGGAAGGACGTTTCTTGACCCACTGGTGCCGGGAAGCTGTCGCCTCCCTGTAGCATCTGTTGGCTCCTGTGGGGCCGTGCGGGGGCCGCCCTGGGTCGGGGGGTAGCGTGTGGCCTCGGGGGTGTCCAGGGTCCGGTGCTCACGTGCTGCTCTGCACGTGGTCCTGGGCCGTCTGGAACCCCCCGCGTCTCTGCCAG
Seq C2 exon
GCCTACGATCAGAAGAACATCCGGAGGCGTGTGTACGACGCGCTGAACGTGCTCATGGCGATGAACATCATCTCCAAGGAGAAGAAGGAGATCAAGTGGATCGGCTTGCCCACCAACTCCGCCCAGGAGTGCCAGAGCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019645:ENSBTAT00000026175:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.304 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0231915=E2F_TDP=PU(56.6=83.9)
A:
NA
C2:
PF0231915=E2F_TDP=PD(41.0=70.8),PF087815=DP=PU(4.2=12.5)
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:
AGGAGAGAAGAACGGGAAGGG
R:
CCAGGCTCTGGCACTCCT
Band lengths:
293-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development