GgaINT0070277 @ galGal3
Intron Retention
Gene
ENSGALG00000010214 | PHF17
Description
NA
Coordinates
chr4:35723489-35724988:+
Coord C1 exon
chr4:35723489-35723700
Coord A exon
chr4:35723701-35724820
Coord C2 exon
chr4:35724821-35724988
Length
1120 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TTTCTTGTGACTGAGTACAGGCC
3' ss Score
0.32
Exon sequences
Seq C1 exon
GGATGCCCGAGCTGGATGAATACACAATGGAAAGGGTCATAGAAGAGTTTGAACAACGATGCTATGATAACATGAATCATGCTATTGAGACAGAAGAAGGACTTGGGATTGAATATGATGAAGATGTTGTCTGTGATGTCTGTCAGTCTCCAGACGGAGAAGATGGCAACGAAATGGTGTTTTGTGACAAATGCAATATTTGTGTGCACCAG
Seq A exon
GTATGGCAGCTGGGGAACTGTAGGGAAGTGTAAGGGTGGTAACAGAAACAGCCAAACCGCTAAAGATGATAGATCGGATTTTTCCAGTGACAGACACTGATCTCCTAAGCTGGTGCAGAGTTCTCTATTGAGCAATGGGATGAAATCAGAAACAACAGAATTGATAAATTGTGGCAGGTTAGAAGCCTTTTTAGCCCGGAACAGCAGATATAATTCTGGCATACCTGTTTCCTTGGCTGCTTCTTAGTATGGAAGATGCCTTTTTTTCAGCTTGTCCTTCCTCCAAACTCAAAGGAATTTGCTTTGTCACTCAGCATTTGGAAAGCTGTGTTGTCTCATAGGCAAGAGTGGCGTTTACTTGCACATGTTGCTTAGATGTATTTGTACAAACAGTAAGGAAATACCTCTAAGAAAACTGCAAGGTACAGATCTTACCTACAAGCTTTAAGGTATTTTACAAAGTGCTCTTGAGAGTAACCTTGATGTTTTTAGACCTGTAACAGTTTCATTTTAGTCTCTGATCACATCAAATCTAAAAATTGAAGGTTAAAATTGAGAGTATCAGATGGAGGTCTCCATAAAGACAGTCTTTGGGGGGGGGGGGAGAAAGTGATCTTAGTTGCTTATTTTGCACTTTTTCTTCTGAATAACAAGGAAGAAACAGTGCTTTGGAATAGCACTGGATATCACACAGCAGTGCTGTTGACTTGGTAGTAGTTGTTGTCTTGTGAAATAGATACAGCTCATCTCCTGGTACATGTAGTCTTTGTGATTCTGAACTTCATCCTCTCTCACTGCTTGCAGAGGTGTCTGTTGGCATTTGCCTTACTCTTCAGTGGGGTGAACAAATTCCTGGTTGAAGAGTGGACAGTGTTCTTCTGTATAGCAGCTGGTCATGACTTCTGTCAGCGAAGGGTCTGTTAGAGGAGTGAATGGGTCGTGTTCAGTTAAGTGCATGAAGGTGTCCCAAGATTCTTTACAAACTGATGTTTCTATAGTGTTATCAACTCCATGAACAGTATCTTGAGAGTTTTGAAAGACAACATGTAAACAGCTAAGAAGTAGCATAAATGCATGCTGTATCCTCTGTCTTCTTTCTCTTTCTTGTGACTGAGTACAG
Seq C2 exon
GCCTGTTACGGTATCCTGAAGGTGCCAGAAGGCAGCTGGCTGTGCAGGACCTGTGCTCTTGGTGTTCAGCCCAAGTGTTTGCTGTGTCCCAAGAAGGGTGGTGCCATGAAGCCGACCCGCAGCGGCACCAAATGGGTTCACGTCAGCTGTGCTCTATGGATTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010214:ENSGALT00000016607:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105134=EPL1=PD(12.5=26.8),PF0013017=C1_1=PU(75.9=62.0),PF138311=PHD_2=PU(42.9=21.1)
A:
NA
C2:
PF0013017=C1_1=PD(20.7=21.4),PF138311=PHD_2=PD(51.4=32.1),PF138321=zf-HC5HC2H_2=PU(28.3=57.1)
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:
GCCCGAGCTGGATGAATACAC
R:
AGCTGACGTGAACCCATTTGG
Band lengths:
356-1476
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]