BtaINT0110700 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20839711-20840812:-
Coord C1 exon
chr19:20840687-20840812
Coord A exon
chr19:20839855-20840686
Coord C2 exon
chr19:20839711-20839854
Length
832 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCTTTCTCTTTGGTTAATAGAAA
3' ss Score
6.77
Exon sequences
Seq C1 exon
ATGGCAAGGTCAGCCCCGGCACGTTATCCATAGGAAGCGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACCTCACCAACTCACTTCGAGCATTCATGGATGTCAATGGAG
Seq A exon
GTGAGTGAGTGAGTCGCTGCGCCTGTGCAGTGTTCAGCTCATTGCAAAGGGGCAGAAGGGGCCCTGATCCTAGGGGGCAGGGAGGTGGGAGGACTGTATGAAAGAAAGCCCCTTCTCCCAATTCTGCTGTATAAGATTGAAGGCAGGAGGAGAAGGGGACGACAGAGGATGAGATGGTGAGATGGCATCACTGACTCAATGGACATGAGTTTGGGTAAACTCCGGGAGTTGGTGATGGACAGGGAGGCCTGGCGTGCTGCGGTTCATGGGGTTGCAAAGAGTCGGACACGACTGAGCGACTGAATTGAACTGATACACATAACAAAGACAAAGGGAGCGCAGAGCCAAGCTAAACCAGTGAGAAGAGAAGAAAGTCACTTTAGGCAGATCACCTGGACTTGAATAAAACCAGGAGCTCCCAAAGGAGGGACCTCGTCTGTGAGAAACCCCCAAAGTCAGGGAGAACTGGAGCAGTCCTTGATCTCTGTGAGCAGGGAGGTTAGAAAGTCCACGCCTCAATACCAGACATCGGGGCTTCCTCTCATCCCAGGTAGGCGAGTGGTGTCTTGCTCCACTTTCTTGGATCGCTGTACCTAACGTTAAGCTGCCCCACTGCAGGGGGCATCTGCCCAGGCTGCCTGCAGCCTCGTTGCAGAAGAGCCAGTGAGATGCTTGGCTCCAGGCCCTGGTACCACTTTGTACTCTGAGTTGTTTGAGAAAAATCACTTGGCTGAATTTTAGGAATGCTGAAATATTGGCTCTGTGACCCTCACCTATTGCCGCATTTCATTTCCTCCTCAGCTGCTTTTTAATCTTTCTCTTTGGTTAATAG
Seq C2 exon
AAATCGAGATAAATATGCTGGACGAGAAGCTGATCAAGTTTCTGGCCTTGCAGAGAATACATCAGCTTTTCCCCTCCCGGGTCCAAGCTTCACCGGGCGGTGTCGGGGCACATCCGCTGGCTTCTGGAGGGCACCACATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.163
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACGTTATCCATAGGAAGCG
R:
CATGTGGTGCCCTCCAGAAG
Band lengths:
249-1081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development