GgaINT0132396 @ galGal4
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:5889957-5891956:-
Coord C1 exon
chr19:5891795-5891956
Coord A exon
chr19:5890774-5891794
Coord C2 exon
chr19:5889957-5890773
Length
1021 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTTTTCTCCCTTCCTCCCAGTGG
3' ss Score
10.06
Exon sequences
Seq C1 exon
GTTCCTGATGCTATAAAGTCCCAATACCGGCTTCCACCCCCGTTACTTGCGCCTGCAGCAATTAGAGATGGCGAGCTGATCTGTAACGGGATCCCTGAGGAACCCTTGCAGAAGCACCTTTTGAACACTGAGCACTTAGCCAGCCAGACAGAACAACAGGAG
Seq A exon
GTAAATGAAGTCAAAATGCTTAGACTCTGTCTGTAGTTGCTTTGGTACAACAATCTTTTTCCCTTTCAGTTGCCATCAGAGCAGTTGTCAGGGAAACCAGCCTCAAAATCGTATTTCTGAAGGTGATAGCTTGTCTTCTCCGTGACACCCCTTGCCCATTAAAACTTCATTTTGGTTTTCCAGGTGAAATGTAAAGCCTCCTCATCTGACACTTCAGGAAAGTGCTGAAATATTCCTCTGGTCTTAACAGTGTCACTGAGGGCTTTCTGTCTAGATGTCATTTTTATTTCCTGGCTGAGAGGACATAACTTTCCGATTTGATTATGTAAGGCTGCTCTCTGACACGTTGGCGTGTGTGTTAATGTCACACGACTGGGCTGCATTTTATTGCTGATAACCGAAGATTTTTAAATCAAGCTCAAATGAGTGTTTAAATCTTGTAGGAAATTTCTTGCTGGACTCCATGATGCGAAGGCATGCAGCCCAAGTCCTGGTAGCTCAGGCTGGGTTCTTGTGTGTGTTGTGTGCACGCTGGCCACGAGGCTTAAAACTTTGAGGAAGTCATCTTCAGCCAGATGTAGAAGAGAAGATGCTCTCATCTCCTGCTTTGGCAGGTGACTGCCTTTAGCATGAGTTAAATCAGTATTTCTTTTCAGCGTACTGTGGAGTAAGCTAAAGGGTTTTGTTTGGAGAGAAGCCCTATGTTAGTGGAAAATGTGAATGTAACTAGCTGAAGAATTTGCAACACTTTCAATGCGGAGAGAGGGAAAGGTTTGGGAGCGAAGAGCTGCCTGCTGCCTTCCCCCTCCTGTCATCTCAGCTCCTCTGTGTGCTGACCACTGCGTAGAGATGAGCAGTGCACATCCAGAGCCTTCTCCTGGCATTAGACGAGCCCAGAGCAGATGCTGGGTGCTGTGCAGCTGGATCCCTTTGAGCCAGCTGAGCAATTGGGTGGTGGAGCTTTGGAGCACGGTCTGCCTGCAGAGCTAACGTGTGGTTGTTTTTTCTCCCTTCCTCCCAG
Seq C2 exon
TGGCTCTGTAGTGTTGTTGCGCTCCAGTGCAGCATATTGAAACATTTATCTGCTAAGCAGATGACTTCGCTTTGGGACTCTGAACAAACAGAGAAGGCTGATATTAAGCCTGTTATTGTGGCAGACGGCACGCTCGCCAACCCTTACCAGGCAGCTGACAAGGCACCCACACCTTCCCTCTATTCCATGTCATCCTGCACCTCAGGGATTACCACCCAGAATTCCTTGAGTTCCTCACAATCCCAGCAGACTTTGTCACAGGAAGATGTCAACTGCAGCTCCTGTCTGGATAAATCCAAGAAGGTGTCTTCTTGCGGGACTTCAAATGGGCCGACGGCCTCTGACGTTAAAGTAAATGGTCCTCATTTCTATGGCGTTTCATCCGAACCTTCAGCACAGTTGACTGACTCCCAGAGGCTGATTGGAGCTGGTAACACAATACCTGTTTTGTCTCATCGGCAAACGTGGCCCAGGCCCCTCACGCCCCCAGCGACTTGTGGACTTCTGAATCACACCATTGGAACCATTGTCAAAACGGAGAACGTAGGAGGACCCGTTTCTTGTGCACAAAGGGGTTCTGTGCCAGTCACAAGTATGCCTACTTCCATATCGAGCTCCTGTGCCAGCCTGGAGACCACCAGCACTTTGCAAAGGAAGAATGTGCAGACGCAGATAGGGCCGCCGCTGTCAGCAGACCTGCGATCCATGGGCTCTCCTCTGACTGCCACCAGGGCTCTCACCCCTCCCCAGGCTGCAGGAGATGGGATCTCGGCTGTTGGATCCGCAAACAGATTCTGTTCACCAGCACCACCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.505
Domain overlap (PFAM):
C1:
NO
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:
AGAGATGGCGAGCTGATCTGT
R:
AGTCTGCTGGGATTGTGAGGA
Band lengths:
351-1372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]