DreINT0113221 @ danRer10
Intron Retention
Gene
ENSDARG00000057439 | phf1
Description
PHD finger protein 1 [Source:ZFIN;Acc:ZDB-GENE-100922-277]
Coordinates
chr16:45464175-45467313:+
Coord C1 exon
chr16:45464175-45464269
Coord A exon
chr16:45464270-45467164
Coord C2 exon
chr16:45467165-45467313
Length
2895 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGTA
5' ss Score
-0.15
3' ss Seq
GTGTGTGTGTTGTGTCCTAGAGA
3' ss Score
8.94
Exon sequences
Seq C1 exon
GTTATCATCCAGAGTGCCATACCCCGTCCATAGAGCCTGAAGTCGACCCCAACAGCTGGATTTGTCGCCAATGTGTCTTCGCAGTTGCAACCAAG
Seq A exon
GTGGTACCGCACCTAAATCAAGAGATTAATACACTACTAGTCAACGGTTTGGGATTGATTTATGTTTTTAAAAATACATTTACTCAAGTCTGCATTTATTTGACCAAGATAAAATTGTAAAATAATAATACAGTTAAAATTAACTGTTATCTATGGTGCCCAAGAAAGCTTAAACTGCTGTAAGTCAGGAAAACACGTTGACAAAACATCTGCATTGGTTTGATAACACATGTGCTCGGCTGCACACTAATTTCACAACACATGCAAATACAGGAACGTGCTGCAAAAAAAGAGGGGGAGTCCTAAAAACTGATGAACCCGGCTGCTTATTGTTAAGAGTAAGTGGTTAATTTAACATTAATTGTGTAATTTGTTAGATTATTCATTCATTCGGCGACGCAGTGGCGCAGTTGGTAGCACGTTCGCCTTACAGCAAGAAGGTCGCTGGGTCGCTGGTTTAATCCTCGGCTCAGTTGACGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTCGCGTGGGTTTCCTCCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATGTGGCACAGGTGAATTGGGTAGGTTAAATTGTCCGTAGTGTATGAGTGTGTGTGCGTATGTTTCCCAGAGATGGGTTGCAGCTGGAAGGGCATCTGCTGCTTAAAAAAAAACTTTCTGGATTAGTTGGCGGTTCATTCCGCTGTGGCGACCCCGGATTAATAAAGGGACTAAGCCGACAAGAAAATGAATGTATTCATACACTACGGACAGTTTTGCCTACCCAGTTCACCTGTACCGCATGTCTTTGGACTGTGGGGGAAATCGGAGCACCCGGAGGAAACACACACGATCGCAGGGAGAACATGAAAACCCCACACAGAAACGGCGAGCCAAGGTTTGAACCAGCAACCCAGCGACCTTCTTGCTGTGAGGCGACAGCACTACCTACTGCGCCACTGCCTTTGTTAGATTACTAGAGCTAAAAATATACAAACTACAAGGGACCACATGATCAGGATGTAAAAAAAAAGAAAAAAAAAACCTTTTCAGATCTCCCACAACACTGCTGATTACTGTTTTGGGTTCCCCAACACATTTCCATTGTGGTCTGTGCTATCTGCAGCTCATCTCTGTATTTGCATGTGTTTTGAGAATTTGCGTGTCGTCAATTTGATGATTTTTTCTCAATTAGTTTTCACGTGTTTTCTTTAGTTGCAGCATATTTTCCTGTAGTTTTCATATAATACAGTTCAAAGTCAGCATGAAACAGAAGTTAGGATTCTCCGTTTCCCCCTCTCATGATGTACATCTTATTAGAATGGTTAAAAAGTAGGGCAGTGCTTAATTTCATCACCTTTCAAATTGATTGGATCATTGAAAGATGGGCATTGCTAACAAAACGGAGGATTTGAGTGCCAGTTTGCACTCGTCAATTTAAATCATCGTCAGCACCCTTAAATTTAGAATATCTTCAGTTGATGACAAGATCGAAGAGCTAATTTTTACAGTTGGAATCTTTCCATATTCATTCAAACCACTGCATCCCATGAAGGCAGCATAAAAACGAGACACACACTAGCTATGTTTCCATCTCAAAATGCGAATTCAGTTTATGCGCAAAGGTGGATTGTCGCATAAAAGATGTGCAAATGAAGCAGCGTTTCCATCCAACAAGTCAAAGAAAACATAATTGTCACTTCCTAATTGATTGGCACCAAATATCAACAGGAAAAACTGAATTTGCAGAGGTAGGAGAAGCTGCGTCAATCTTTTCATCTTTTAATAAATCAGTTGCACCTCAGAAAACAAATGCCAACACGCAATTAATGTGTGGGGACGTTTGAAGGCATGGGAAGCGGAGCGCAGACGCTCTTGCCTATTCTGGAGGTAATTAATAATATAATTACACTAATACTGAAGCATTTTAGAATGACCAAAACAACATTTCAGATCGGTGAACTGAATTGGCTGTAGTGTATAAGTGTGTGTGTGATTGAGGTGTTTCCCAGTAGTGGGTTGCAGCTGAAAGGACATCCGCTGCTTAAAACATATGACAGAATAGTTCCGCTGGTTGCTGGTTTGAGTCCCGATGTTCTCCCAGTGTTGGCGTGGGTTTTCTCTGGGTGCTCCGGTTTCCCCTTACAGTACAAAAACATGCACTGTAGGGGAATTGGATGAACTAAATTGGCCATAGTGTATGAGTGTGTGTGAATGGGAGAGTGTATGGGTGTTTCTCAGTACTGGGTTACGACTGGAAGGGTATCTGCTGTGTAAAACATATGCTGGATAAGTTGGCGGTTGATTCCACTGTGGTGACCTCTGATTAATAAGGGACTAAGCCAAAGGAAAATGAATGAAGGAATGAACTTGCATAGATTAATTAACAACAAAGTGCGATAACAAAATAAACCCTGCAAATTTAGATCTCTCAGACACTTTAAATAAATACACAAAACAGTCTATTTTTAAAAACAAAACCCAAAAATTATACTGATCTCAAACTTTCGACCGCTAGTGTGTTTGGAAAAGCTAAACATGAGCATCTCATTTTGCACACACAGCTTCAGTCTTGCAGTACGGTGTAAAGTGTATCCACCATGGCTTACTGCACTTGACTGCGTGTTTATTGCATTGCAGCACTGCAGGTGACGGCGCTGCATTAAATGGGCTTGTGCTTTAATCTGTCTGTCAGAGCGCTCATTTCACAGGCCTTACATGCTGATTTGAAGATAAAATCATATCTCAATCCCCCCCACCACCTCATTCGCACGGCAAGAAATATTAATGACTTCCTCTAGCACGTCTTCTCCACATTCAATCTGCTGATGAAATGGCTGTTAAATGTGCTTGTATGACAGGAGGGCTCATGTGTGTGTGTGTGTTGTGTCCTAG
Seq C2 exon
AGAGGAGGAGCGTTGAAAAGAGGACGTTTCGCTCGGCTCATGCAGATCATGAAAGTACGCTTGCCCTATCAGCTCTCATCTCTGGACTGGGACCCTCAGCACTTGACCAACCAGCAGCAGTGTTACTGCTATTGTGCTGGGCCTGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057439:ENSDART00000134471:5
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:
PF0062824=PHD=PD(54.0=84.4)
A:
NA
C2:
PF0062824=PHD=PU(15.1=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]