BtaINT0147350 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019645 | TFDP1
Description
Bos taurus transcription factor Dp-1 (TFDP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001076029]
Coordinates
chr12:90748812-90749968:+
Coord C1 exon
chr12:90748812-90748933
Coord A exon
chr12:90748934-90749802
Coord C2 exon
chr12:90749803-90749968
Length
869 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
GCTCCGTGCTGTCCCCACAGGAA
3' ss Score
11.56
Exon sequences
Seq C1 exon
GTAATTGGTACGCCTCAGAGACCTGCAGCGCCAAACACTATCGTGGTGGGAAGCCCACACACCCCTAACACTCACTTTGTCTCCCAGAACCAGCCTTCAGACCCCTCACCTTGGTCTGCCGG
Seq A exon
GTGAGCACTTGCCTAGAACTCCCCCCACCCAGCCTCTGCATGCGCGTGGGCACCGGCGCGCCGGAGGAGCGGGCAGTGGCCCCGAATGGCCTCGCGAGGCCAGGCCGCGGGCAGCCGCCCTGAGTTCTGGGGGGAGGGGTGGCGCCACTGGGGGGGGGCTCCAGCTTCTGAGCGCGCTGTCCTTGGAAAGTACCCTTTGTGGAACCCCAGGAAACGGGCGGGTCTTCCAGCCTCTCCCCCTGCCGCTAAACGTGGCTGTGTGCAGCCGCCTGCCACGGTCACGCTGCTGCCTTAGTCCTTTCCTCCAAAAGCAAAGTGGCGTGAAACAGTTTTACTCAGAGTCAGCTGCGCGGCCCTCCTTAGAGACGAAAAGCTACTGGTTCTGGAGCAACAGCCGTCAGTCCCCAGAACCCCTCAGTGGGGAGCCTGGGTGGCCCTTCCCCTCAGGTGGCGACTTAGAAGGTCAGGTGCTGGGTCTCCCTCCTGGCTGCCGTGTGGCCTCATCTCAGCCGGGCTGCGTTTGCCCCAAATTCCGAAATTTGCAGCAAAACTTCCATAGCTCCTCACGTCCGATGACGTTTTATTAAGAAGCACCGTTTAGCGTCTGGACACCCGTCCGACGTGTCCCAGGTCCTGCCCTGCTTTTCCCTAGAGTTGAAGAGACGTGTGGGGCGCGGCCATGTGGAAGTTTGTCCTGCGCCCTTTCAAGGAGGGGGGTCCCTGGATGGGGGACGGAGCCAGGCTCCCACCCCTCCTCTGTTGGGCATGACCCATGGGGGCCCCTGGCGGCAGGAGCAGGCCCCCAGACGTGGGTGTGGCCGGCCTGCGCTGTGAACTGAGGCTGCAGCTGCTCCGTGCTGTCCCCACAG
Seq C2 exon
GAAGCGCAACCGGAAAGGAGAGAAGAACGGGAAGGGGCTGCGGCACTTCTCCATGAAGGTGTGCGAGAAGGTGCAGCGCAAAGGGACCACGTCCTACAACGAGGTGGCCGACGAGCTGGTGGCTGAGTTCAGCGCAGCCGACAGCCACATCCTGCCCAGTGAGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019645:ENSBTAT00000026175:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=0.304
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0231915=E2F_TDP=PU(56.6=83.9)
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:
AATTGGTACGCCTCAGAGACCT
R:
CGACTCACTGGGCAGGATGT
Band lengths:
286-1155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development