BtaINT0110712 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20840687-20842797:-
Coord C1 exon
chr19:20842002-20842797
Coord A exon
chr19:20840813-20842001
Coord C2 exon
chr19:20840687-20840812
Length
1189 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTTCCTGCTCCGTCCCCAGATG
3' ss Score
12.16
Exon sequences
Seq C1 exon
TGGCTCTGTAGTGTTGTTGCGCTCCAGTGCAGCATATTGAAACATTTATCTGCTAAGCAGATGCCTTCGCATTGGGACTCTGAACAGACAGAGAAGGCTGATATTAAGCCTGTTATTGTGACTGACAGCTCAATCACCACCTCCCTGCAAACAGCTGACAAGGCACCTCCACCTTCCCACTACCCCTTGTCCTGCCCCTCAGGGCTTAGCACCCAGAATTCCCTGAGCTGCTCTCCACCCCACCAACCCCCCACCCTAGAGGACATCAGCTGCAGCTCTTGTGCGGAAAAATCCAAGAAAGCCCCCTGTGGGACTGCCAACGGGCCGGTGAACACAGAGGTGAAAGCCAATGGCCCACACCTCTACAGCAGCCCCACTGATTCCACGGACCCCCGGCGACTTCCAGGCGCCAACACCCCCCTACCCGGCCTCTCACACCGGCAAGGCTGGCCCCGGCCCCTCACGCCACCAGCGGCTGGGGGGCTTCCGAACCACACCGTCGGCATCATTGTGAAGACAGAGAATGCCACTGGCCCCAGCTCTTGCCCCCAGAGGAGTGTGGGTCTTGTCCCAAGCCTACCCCCTTCCGTTCCCAGCTCTTGTGCCAGCATCGAGAACACCAGCACTTTGCAAAGAAAGACTGTCCAATCCCAGATAGGACCTCCGTTGACAGATTCAAGGCCACTGGGCTCACCCCCAAATGCCACCCGGGTGCTCACTCCCCCCCAAGCAGCAGGTGATGGTATCTTGGCCACAGGAGCCAATCAACGATTCTGCTCACCAGCGCCGTCATCAG
Seq A exon
GTGAGTGCGGCTCAGCCTTTCATGCTCTTCCTGGCAAATAACTCTTAAGGTTCAAGCAACACTTGTATCCCTGTAAACGTTCCAGAGGACTTTGATCTCCGTATTAACTGTCCTTCCCCCCGTTTCTATGATAGAAGAGAAAGTGCCTGTTAACTTGTCCCTAATTTAAAGGCGGGACCTTTAGGCTCTGAAAGTGATTTCCTTAAGGTAACCTACTGAGTTAGTCAGTGCAGGGGTAGAAGTGGAGCCTGGGTCTCTTGACTGTCCCCTCCCATGCTCTCCAGGCTTTTTGTCCCATCACTTTAGAGGAGAGCAGCTGGCTCCCGGAAGCTGCCGTGGTCAGCCTGAGGGTTACGGCCTCTGTGTTTGATGATCCACTCCATTCCAGATTCTCAGAGACAGCTCGTTTGAAGGAATTGCTGTGTCAGGGAAGGCAGGGCCGCAAAACAGCACTGCCCTCCAGAGTAGGCAGAGTTGGGTGCCCGCAGAGGTTGCTCTGGCCCGAACGCTTGCACTCGGGCCACATTCTACAAGGCAGTCCCATAATGCGACCTGGGCCGGGTGTAGACCCGCTCTTTCAGCTGTCCCCCGTCAGCATTCAGGACCTCAAGGTTGCTGACCCCAGCATCTGAACCAGGTTTCAGATGCTGCTGGAACCCCCTGTGGTCTCTCCTGTCTGAACTGAACTGGCCTCCTAGTCAGCTGGGAGTCTCGGTGACCAGGTGACTGTGACTTCTCTGCATGGGGGCCCCTGGTCCCAGGATGGCCCCTACTCTCAGGCTCTCATCCTGTTTATCTCTGAATACCAGCCTGGCTACCTTTGGCACCTGTGAGTCCACTTTAGGACGCAGGAGCTGCAGGGGCAGGCATCACCTACTTGAGTGAGCAGAGGCAGCCGGGAGGTATTCATGGCCCAGAGGACGAAGCTGTCCCACCACGTCCCCCTGAGCTGTAGATGTCACTCGTTCTCGTGCTCTGGGGACTCCTGCGTGCCCGGGTGTGTTGTCGTTCCACCTGCCCTTCCTCACCACACGTTTTTAGCTCTAGGAGTTCCAGAGCCTATGGGGTGAGGATCAAGAAGGGAACATCACCTTGGGCCCGAAATCCAGGCCTGTCTCTGCAGTGGGGGATTGGACCGGTGGGTTTCCCTCAGGCAACGTAAGTAACAGTCTTCCTGCTCCGTCCCCAG
Seq C2 exon
ATGGCAAGGTCAGCCCCGGCACGTTATCCATAGGAAGCGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACCTCACCAACTCACTTCGAGCATTCATGGATGTCAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.209
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCGGCATCATTGTGAAGA
R:
GGTACGGTTAAAGCGCTTCCT
Band lengths:
352-1541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development