GgaINT0132402 @ galGal4
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:5882263-5883877:-
Coord C1 exon
chr19:5883739-5883877
Coord A exon
chr19:5883455-5883738
Coord C2 exon
chr19:5882263-5883454
Length
284 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
ACGTGCTTTTTCTTTTCCAGAGC
3' ss Score
11.58
Exon sequences
Seq C1 exon
AACACGAAACATTACGAGCTGTTGAACTACAGCGAGCACGGGACGACGGTGGACAACGTTCTCTACTCGTGTGACTTCTCAGAGAAGATGGCTCCCACTCCTCCCAGCAGTATTGTTGCCAAAGTGCAGAGTGTGATAA
Seq A exon
GTGAGTGTCCTCCCAGCCCAGCCCTGTCGTGCCGTGGGGGCCCATCGGAGGTCCTGTTCCCCTCTGCTCAGCTGCCTCTTGCCTGGCTGCTGAGATGGATGCGCCCGCGTCCCCCTGGGGACGATGGGACACCTCTTGGGGCTGCCCTGGGACTCTTCCATCTGCTGCTGAAGTGCCGCCAGGCTGGAGGGTTTGCTCCTGGAGCACCCCAGCAGCAGCCGCAATGGGCTGAAACGAGCTCCTGCCTCAGGCTGCCCCAACCTGACGTGCTTTTTCTTTTCCAG
Seq C2 exon
AGCGACACAAAAGCAGGAAGCAGGAAGAGGAGCCGCACGGAGAAGCCGCCGTGATGAATTCGCAGGCACAGGGGCAGCATCGGAAGCCCTGCAACTGCAAAGCCAGCAGCTCCAGCTTGATAGGGGGCAGCGGGGCTGGCTGGGAGGGGACGGCTCTGCTCCACCACGGCAGTTACATCAAGCTGGGCTGCCTGCAGTTCGTTTTCAGCATTACCGAATTTGCGACCAAACAGCCCAAGGGGGACACTGCCTTAGTACAGGACATGGACTTGGAGGAGAAGCTCTCTCTGAAACCCCACCAGGTGCCCGTGCTGCGCTCCAACTCCGTTCCCTAGGAATTTGGAGGAAGGGAGCTTAGGAGATAAGGAAACGCCCTCAGACTCTTTGCAATGCAAAACTGTACAAACCCGAGGTGGGAATTTTCTATGTCAGCCCAGAGACTGTCCACACGCCATTTGCATGAAATGAAGAACGTTTAACTTTTTTTAATTTTCCTTTTTTTGCTCAAGTTTTAGGGGCATTTGCACATATATTTGTACTATACATTTCATTTTAAAAGGAAAACTGCAGCGAGAGCAGCACGCGTCGGAGCGAGGGGCGTCTGACCCGAGGACTCTCTCTGCCAGATCGTACCCACGCAGTTGTAAAATAATCAGAAACTTGTTCTATTTTGTGCCAGTGACAATAGTTTTATATTAAAAAGAGAAATACAGTTTTCATACAGCAAATCTATACAATATCATTGTTTTATTTAATGTAAAGAAGCGCTCTTCTTCCCACAGTTACGTTTCCCACCCCTCCCCGCTCTGGTTGCACTACAGTAGCTACTGTGTATTGGGCAGTGAGAAACGACTTCTTTTCCTGGTGTCCATCCTCTTTTGTTTTGTTTTGTTTTTTTATTATTATTATTATTATTTCGAATAAGGAAAAGTGTTGGATTCTGTGTAAATACATCAGTGATGGCATTTTCAATGTTTTAAAGCTGTGTACAGTGCTACATGTGGTATGACGTCCCCCGACTTGTCTATTGTAGCAGCTCGTTCGTCGTAACCCCCCTCTGTCTCTTTTGTTTATATGCCACCCCCCCCCCCCAGCAGGCCAGCTAGCTCCACTGTACAGAGTAATTGTAACGTTTTAGACTTTACAGAAACTTTCCTGTATTCTGTATATAAAAAAAAAAAAAGTTCACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.414
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGATGGCTCCCACTCCTC
R:
GGGCTGTTTGGTCGCAAATTC
Band lengths:
293-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]