DreINT0113217 @ danRer10
Intron Retention
Gene
ENSDARG00000057439 | phf1
Description
PHD finger protein 1 [Source:ZFIN;Acc:ZDB-GENE-100922-277]
Coordinates
chr16:45473353-45473927:+
Coord C1 exon
chr16:45473353-45473420
Coord A exon
chr16:45473421-45473795
Coord C2 exon
chr16:45473796-45473927
Length
375 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GATTTGGGTTTATCCTAAAGGTT
3' ss Score
5.47
Exon sequences
Seq C1 exon
CTGTCAGACACGCCGAGGCAAGACCGTTGCCAAAACCTGCTCAACGCTTTAAACTCCCACAAAGACAG
Seq A exon
GTGAGACACGGATTACGCTCGGAAAAAGGCTGATTTCCATACACCAGCCCATAGGGGGGTGTACTGCGGCGCACATTTGCAATAATATCAGCAAAAGCATTACTGTAATTGCTTTACATTATAAGTGGTTTTCCCCTCCCCACAAATAGTGTTTTGATAGCTGACGGTGGTTTCGTCTTTCAGAATAAATTATTTAAAGTCCATTTCCATTTTCTTTCTGTCAAGGTTAGTGGTTGATGCCCGCTCATACGCTGGCGCTTAAATAACCGAATCAGATGTTTTAGTTTGGCGGCCAGAAACAAATAAAAATCTGTCAGCGAGGCCTGAGGACAGCAGTTGAATACCAATGCAATCTGATTTGGGTTTATCCTAAAG
Seq C2 exon
GTTCGTCTCGGGGAAGGAAATCAAGAAGAAGAAATGTCTCTTCGGGCTCCAGGTTCGAGCTCCTCCCCCTCTGTCATCCGACCAATCACCTTTCATCGCCGAACAGCCAATTAACATCACCCACAGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057439:ENSDART00000134471:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.101
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCAGACACGCCGAGG
R:
TCTCCTGTGGGTGATGTTAATTGG
Band lengths:
198-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]