BtaINT0110709 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20846117-20848322:-
Coord C1 exon
chr19:20848190-20848322
Coord A exon
chr19:20846282-20848189
Coord C2 exon
chr19:20846117-20846281
Length
1908 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
TGTGTCTGCTCCGTCCCCAGCTG
3' ss Score
10.38
Exon sequences
Seq C1 exon
GAGTTGTCGCGTGGCCCCTCTCATCCAGTGTGACTATTGCCCCCTCCTGTTCCACATGGACTGCCTCGAGCCCCCGCTCACTGCCATGCCCCTGGGCAGGTGGATGTGTCCGAATCACATCGAACATGTGGTG
Seq A exon
GTAAGCATGGCGGTGTCCGTCCGTCCTATGTGGGCACAGCCAGGGCGTGGACCCATTCAGTGGGAAGCATAGTACTGTCAGCCTTGTACCAGAGTTCACTCCAGTCTCTGAGACGCTGGTTCCTGCAGACCATCCTACCCACTTCTCATTGCTGTGACCTGCCTGCCTCGGCCGTGCGTTTTGCCTTTTCCCACAATGCCTTGTTTCAGTTGCACAGGCAGACTTAGGCCACTAGCTCTTGATTGTTCGTGAATAATTTCCTCTGTGATGAGTTAAGCAATTGGTGCTACAGCCCTCAAAAGGGAGTAGTTAGATCCAGCCTTATGCAAATCAATGCTCTTCCATATTTTCTTTTTCTTAATTCATTTTTAATTGGAAGATAATCGCTTTACAATGTTGTGATGGTTTCTGCTGTACAACAACGTGAATCAGCCACAAGTCTCCCATATTTTCTTGTTTCTTGTTTTTAGAGGGAACAAACTAAGAAAGTTCTAAAATATTTATTCTCATAGCACTGGCAGGTAACTTCCCAGTAACTTTGGAGAATTGAAGAATTGACCCAGATAACTAACGGTATTCCAGACAGTCATTTATTGAGCACCTAACGTGTCCTACACACCACACGACGAGGCCCTTGCCCTTCTCTTCCTTTGTCAAAGCTGTGGAATGAATGAATGGTATGAGGTGCTGTTATCTTATCTCCCAGGAGACTTGGTTACATTTTCCAGACTGCTTCCCGGGGCCAGACTAGAACTGTAATTTCCTATCTCCCCTAGAGGGTTAGGACATCTCCTAATCAGCATGGTCCCTCAGAAGGTTGAATGAGAGAGGGCCTCAGGCGGAGCAGCTCCCTCATAAGAGTAGCCTCTCCAGGTTCAAAGGGTAATTGCATAAGGCATCACCATATCAAATGGTGATAACCATGGAATGACTGCTGGCCTTCTGCACGACCAGCGCTCTCCGCTCTGCGCTGAGAGGAACTTCAGTTACAGACTTGCTCATAAGGGAGAAAGGGCGTGCTTGGCCCTCTTCACTTCACTCATGCACCTCAGAAGGGTTATGCAGGAGGAAGCCTCTCTCCAAGGCTCAGTGTGAGTGTCTCGTTTTGCCTCCTGCTGAACCAGAAGAGAAACAGCCATGAGCAGACTACCCAAATGTGAATCTGTAAGAGCAGCCTTTCAGCAGATGAGGAGTTATTAATTAGGTGATTGTTTATTAGCCACATAGGGGGTTTTCCTAATTTACTAATTAGGAAGCTGCCACATAGATCTTTTCTTTTAATTAAAGTATAGGGGACCAGACATAGAAAAGGAAAAGAGGCATAGTTGCTCCATGCCTTCTGGAGGCTACTGCACACTTTTTTTCTTCCCTCCCTTTGGCCTCTTGAGAGCAGGCCAAGGCTTTCTGCCTGCTGTAGAACAAGGCTCTGGTACCCAGGTGGGTTCACGAATGCTCCCTGGTGCCATAGAGGAGGAATAGGGCAGGATTCTGGTGTTGGTCTCACCTGTCAGCCAAGCTCCCACACGGGGAACAGTCCTGCTTCTGGTGGGAGAGAGGCCCTTGCTAGGAAAGGAGTCTGGCGCTCTCTAGGGCCAAGGCCTGCATCTCCTCTGAAACCTGTACACTGGGAAGAGGACTGTCAGAGGCTGAGTTTGGAAGGGCTCTTCCTGGCTGACTCCCCGTGTCTTGTCCCCTTCGGGCCTCTCTAGGGAGTAGGAACTAGACTGGGCAGGGCCGAGGGAGCATCTCACCCACATCTCCTGGCCCTCTGACAGGAGTGTTGACATACCAGCTCCTGACAAAAGGAGCCTACTGGGCCGAGGGCTCCTTTTTTTTTTTTAACATAAGATAGTTGGGAGGGTGATGCAGCTGAGCTTCACAGCAGGAATGTGTCTGCTCCGTCCCCAG
Seq C2 exon
CTGAACCAGAAGAACATGACGCTGAGCAATCGGTGCCAGGTGTTTGACCGCTTCCAGGACACCATTTCACAGCACGTCGTCAAAGTGGACTTCCTGAACCGAATCCACAAGAAGCACCCTCCCAACCGCCGCATGCTCCAGTCGGTCAAAAGAAGAAGCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:6
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=0.145
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(71.8=62.2),PF0062824=PHD=PD(84.8=86.7)
A:
NA
C2:
NO
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:
GTGGCCCCTCTCATCCAGT
R:
TCAAGCTTCTTCTTTTGACCGACT
Band lengths:
286-2194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development