GgaINT0108086 @ galGal3
Intron Retention
Gene
ENSGALG00000016727 | PHF16
Description
NA
Coordinates
chr1:134263503-134266280:-
Coord C1 exon
chr1:134266069-134266280
Coord A exon
chr1:134263671-134266068
Coord C2 exon
chr1:134263503-134263670
Length
2398 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GATCCCTGTTTTCTTCCAAGGCA
3' ss Score
7.24
Exon sequences
Seq C1 exon
GATGCGGGCCCCTGGATGAAAACACAATGGAAAAAACTATTGAAGTGCTGGAGAGACACTGTCATGAGAATATGAATCATGCTATTGAGACCGAAGAAGGTCTGGGTATAGAGTATGATGAAGATGTCATCTGTGATGTGTGCCGGTCTCCTGACAGTGAAGATGGGAACGATATGGTGTTCTGTGACAAGTGTAATATCTGCGTCCATCAG
Seq A exon
GTCAGTGCCTGCAGAGGTATTGACGCTGTCCTGTCATCTTTGTTTACCTTAGCAAGTGTGGAATTTGAACCAGTACTGAATGTTAATTTGGAGGCCTTTGTGATTCTCTGGGTATGAAGGGTGATAGAATATTGAGTTCAAGTTTTGTACTCCGAGAGTTACAGCAGATAAATGGCTGAGCATAGTCTGTGTAGTCTAGCTGTAATGTGAAGCGTTGTCTGGACTTGCAAATACTTCCTCCACAAGCATAAACAGTTCCCCTCCACATCCTTAGTAAGCCTGCATTTGTAAATAAACAGGCCAGAGAATGCTGGCAGCCTGTATCTTAACAAATTTAAGGATCATTTGTTTTGCAGCTGGGGCATTTCCCTCCTCAGTTGACTGGTTAACTGGCTCCAAATTTAGCCACTTGAAACCGTGTGTATAGATGCTTTAACAGACTGATTTTTTTTTTTTAGTGGGCATAAGCACCTGCAAGAGCCGTGCTCTTGGTCTGAATGCTGCTCGTGTTTGTGGTGTTTCAAATGTAGCCAGGACCTCACACCGACTGAGCTCAGCCTCATCAGGCAGAGGTATCCTCATAACTAAAAAGTGAATTTGAGCCCTGTGGTTTCTAGTGCATCCTGTTTGAGAAGGAATTTTACAGCTGGGCTGCTGGCTCCAGAGGCAGCCCCTGCTTGTGCCCCTTGAAAATACGGAGGAATTTGCAGCACAAGGCTTGGGGTTGCCCGCAGCACTGGAGCTGATGGCCTCCTGCCTTCTAACCCTGCCTCTTCCCCAGCCACAGGATCCGGACCTGCTCAGCAGAAGCTGGGCTGGAGCTACTCCTAACAAAGCATAGCAGCAAACAGCCAATCGAAAATATTTATCAGTTCAGGTTTTATTCCGGATGGGCTCCAGTTCACCAAGCAGCCTCAGGTCTGTTTGTCAGCACACCGCTTGGAGATGCAGAGGAGTGTGAGGGGTTTCTTCCCTCACAGTGCGCTCTCACGCCGGCTCAGATTGCTAAGTTACCGGTTTGTTAGTCTAGACCACCTCCACTTATTAGCTGGTTTGAATTAGGAAGTGGTATATGTCCATTTCCAGCCTCCTGAAAGTGATCTCTTGGTGTAATGCCGCTTGGACACGATGATTTCTAGAAGTCCCTTCCAAACCTTGCAATTCTGTGATTCTGCATTGGTAATAGAAAGTGTTGGTGAGAATGTACCATTTAACAGGAAATAAAAATCACTTTTAAAATTTAGGTTACAGCTCCCCCTGTTGGGCCTTTACAATAGTCAAACGTGAAAGCAGCGTTTAGGTTAGCCCGACTTGGTGCTTTCATGACACAGGATTTCATTCAGGGAAGTCACCCTTCCTGTAGGCATAGCATGATTGTGCAATATTGGACATCTCTTCACATTACGTACCAAGATCCTATAACCAGAAGGCTGGGAAAGCAAGCATGGGGAATTTGTACTAGATTTGAATCTAAGAGATTGGGTTACAGATAATAATCCTGTTCTGTCAAAGCTTTCAATGTTACTGTTTCCTGGTATGTGTTGGGAATGGTGTGATTTCCTTTGAAATCTGCTTTATTGATAAAGCTTTTGTTGGGGGCAGCTGAGTGGGGTTGCACCTTGGTAGCAACCAATGGTTTCAAGTATGGTCAGCTTAAATGCGTCTGTGCAGCAGGATGTGTCTATGTGCAGGTATAGTTAGCCATTAAGAATTGCTAAGAACTTGAACTAGAAAGCAAACTTAAGTTTCTTTTTTACTTTTTTATCCTCAAACTTAGCAAGAGTTAATAAATCTCTCAGTTTCCAAGAGAAACTGGCATTTCTCCTCAGGGAAACAGGCATAAAAAGCAGAACCTCGTGACTTCAGTATATACTGTTGTCATTTTTGAGGCAATATTATATATAAATATTTGAAGTCTCAAATGATTCTCAGAACTGTAACCACAAACGTAATTTAATGTCACGGGAAACAATCTTCAGTCAAGCAGTTCTTATCACTTCACATCTGAATAGAATAATGTTAGAGCATAAAGTTGTTAACAATAGGAGATTGTGAGCTTAAAGAGATGCTTGTTTTTTGCTTCAGAAACATAAAAAGACACTGAATGCAAAGGTGAAGGTTGTAACACCAGTGTTGTTCAGTTACAATGGCTGTTTTATACAAGAACCAATAACACCAAGACATGTTTTAAAAAGAAACTGGCATGAAAAGGCTTTGTTTTAATAGGTTGTTAATCTCTTTGATCACCTGACTCCTTCTAAGGTAAAGAAGTTAGAGAAAGATTAAGTAAAGGGCAAACTATGCCTTTAGGATTTGAAAGCTTCATGCCATACGAGAATTAATGTTTGGATGTAAAATGCTATCAGTGCAACGACCTCGATCCCTGTTTTCTTCCAAG
Seq C2 exon
GCATGCTATGGAATCTTGAAAGTCCCCGAAGGGAGCTGGCTGTGCCGCACCTGTGTTCTGGGGATACATCCTCAGTGCCTCCTGTGTCCGAAACGAGGAGGTGCCATGAAAGCCACCAGGACAGGGACCAAGTGGGCACATGTGAGCTGTGCTCTCTGGATTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016727:ENSGALT00000026992:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF105134=EPL1=PD(11.1=26.8),PF0013017=C1_1=PU(77.2=62.0),PF144461=Prok-RING_1=PU(82.5=46.5),PF138311=PHD_2=PU(42.9=21.1)
A:
NA
C2:
PF0013017=C1_1=PD(19.3=19.6),PF144461=Prok-RING_1=PD(12.5=8.9),PF138311=PHD_2=PD(51.4=32.1),PF138321=zf-HC5HC2H_2=PU(76.2=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]