BtaINT0110704 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20835680-20837449:-
Coord C1 exon
chr19:20837311-20837449
Coord A exon
chr19:20836946-20837310
Coord C2 exon
chr19:20835680-20836945
Length
365 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACCTTCCCCTTCTCTCCCAGGGC
3' ss Score
11.6
Exon sequences
Seq C1 exon
AATACCAAACATTATGAGCTGTTAAACTACAGTGAGCACGGGACAACGGTGGACAATGTGCTGTATTCATGTGACTTCTCTGAGAAGACCCCGCCAACCCCCCCAAGCAGTATTGTTGCCAAAGTGCAGAGTGTCATCA
Seq A exon
GTAAGTTGGAGCAGAGGCCTGTGGCCACGGAGCCTGCCCTTTTTGGACACTTGGTCTGACGCCTCAGAGTGGCTGTGGCTCACTGCCATGACCTGCTGTCGCTCGCCTTCCCGGTCCCGTTGGCCAGGTTCTCCTTGCTCATGGGCCCCGGAAAGGCCACAGAGAAGCACGTGCTGTGCACTCCCATGGGTATATACACCTACCTTGGGAGCCTCAGACCCCACCCCTCCTTTCTGAGCGTCCCTCACCCCAAGTCATGCAGCATTTTAGAGTGGGGAGGTGCAGGGGCCCCACCCTGGCCAGTGGCCCAGGTGGGGCTTGGCTGCTCACTGTTCCTCTCTTGTGACCTTCCCCTTCTCTCCCAG
Seq C2 exon
GGCGCCGCCGGCACCAGAAACAGGATGAAGAGCCAAGTGAAGAGGCAGCCATGATGAGTTCCCAGGCCCAGGGGCCGCAGCGGAGACCCTGCAACTGCAAAGCCAGCAGCTCGAGCTTGATTGGGGGCAGTGGGGCCGGCTGGGAGGGCACGGCCTTGCTGCACCACGGCAGCTACATCAAGCTGGGGTGCCTGCAGTTTGTCTTCAGCATCACTGAGTTTGCGACCAAACAGCCCAAAGGCGAGGCCGGCCTGCTGCAGGATGGGGTCTTGGCCGAGAAGCTCTCTCTCAAGCCCCACCAGGGCCCCGTGCTGCGCTCCAACTCCGTTCCCTAGGACTGGCGGCTACCCCGTCACCCGCCCGTCCACCCCACCCAAGACTCCTGCAATGCAAAAATGTACACAAACCAAGCCCGGGTTTTTTTTCTATACTCCACCGGAAACCCTTCGACTACAATCTTTGCATGAAATGAAGAAACCTTTTGACTGTTTTTTAAAAATCCTTTTTCTTTTCTCAAGTTCTAGGGGGCATTTGCACATATATTTGTACTCAACATTTCATGGGAAAGCGGCAGACCGAGCTGAGGAACAGCGTGGGCAGGGAGGGGAAGGCCGATGGTCTGGACACCTCCGACACAAAACCGTTCCCCACCCACCTCCTGCTCCCTCCCCCTCGCCCGCCGTTGTAAAATAATCAGAAACTTGTTCTATTTTGTGGCAGTGACAATAGTTTTATATTAAAAGAAAAAAATACAGTTTTCATACAGCAAAATCTATACAATATCATTGTTTTATTTAATATAAAGATCGTACCCACCCTCCTTCCATGGTTCCCACCCTCCAGGTTATTTTCCCTTTCTGCAGCGGTTGCACTACAGGTAGCTACTGTGTATTATGGACAAATGAGAAATGAATTCTTTTTCTGGCTGTCCATCTTATTTTATTTCAAATAAGGAAAAGTGTATTTGGATTTTGTGTAAATACATCTAGTGATGACATTTTTTCAATGTTTTTAAAAACTGTGTACAGTACTACATGTGGTAGAGCGTTTTCTTCAAATTGTCTATTGTAGCAAAAACGTTTTTGTCGTAAACCTGTTTTGTCTCCTTTTTTTGTTCTCTTGCCACTTCTCTCCTCTTCCTCCCACCCCTGGCTCCCTCCTCTCCCCCCTCCCCCACAACTAGTACCGATGTACATAGTAATTGTAATGTTTTAGACTTTACAGAAACTTTCCTGTATTCTGTATATAAAAAAACAAAAATACTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.351
Domain overlap (PFAM):
C1:
PF0049821=FHA=PD(47.7=66.0)
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:
CTACAGTGAGCACGGGACAAC
R:
GCTGTTTGGTCGCAAACTCAG
Band lengths:
347-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development