DreINT0113284 @ danRer10
Intron Retention
Gene
ENSDARG00000078050 | phf19
Description
PHD finger protein 19 [Source:ZFIN;Acc:ZDB-GENE-081105-128]
Coordinates
chr8:12335582-12337395:-
Coord C1 exon
chr8:12337246-12337395
Coord A exon
chr8:12335652-12337245
Coord C2 exon
chr8:12335582-12335651
Length
1594 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
ATCATTTTCCTGTGTTGCAGTAA
3' ss Score
7.84
Exon sequences
Seq C1 exon
GTTTCTCTGCGGCAAGGAGATCAAGAAGAGGAAATGCATTTTCCGACTAAGAACGAGGGTCCCTCCTAACCCTCCATCTAAGTTGTACCCAGAGAAGGCCCAAAAAAGTGATGCACATAGGGGACGCAAAAAAGCAGTCAGCAGAAGCAG
Seq A exon
GTTAGTTTCACAATCTCTGAGCATTTCTGACAACCTTTTGTTTTCTTTCTAGTGCCTCTTTTTTATTAACTGTGCTTCTAGTTGATGGAAACAAACTCATCCATGAGACTGGTCATCAAGACATCTATCACAATAAAATTGAAATTAATTGGCTTTTTGTGTATTATCCAGTCGGCTGATCATAAATAAAAGCTTTTATTATTTTACCAAGGGACTTAAAGGAACACTTTGTTTGGAAATAGAGTTAAACAGTTTCTATTTACCATTAGTATGAATCTTGTCAAATTATCTCTAGGTCTGGTGGGAGCACTTGTAGCTTAGCTTAGCATAGATCATTGAATCTGATTAGACCATTACCGTCTTTCGGATGAGACGTTAAACCGAGGTCCTGACTCTCTGTGGTCATTAAAAATCCCATGGCACTTCTAGTGAAAGAGCAGGGGTGTAACCCCGGTGTCCTGGCCAAAGTCCCTCTATCGGCCCTTACGATCATGGCCTCCCAATCATCCCCTTCCACCGAATTGGCTCTATCACTGTCTCTCCACCAATAGCTGGTGTGTGGTGAGCGCACTGGCGCCGTTATCCTGTGGCAGCCGTCGCATCATCCAAGTGGATGCTGCACACTGGTGGTGATGTGGAGAAACCCCCCCTCATGATTGTGAAGCGCTTTGGGTGTACAGCCATACACAATAAAAATGCGCTATATAAATACACATTACATTATTAAAATAATTGTCTCACTCAATAATGACCAAAGAGTTTAGGTAAGTTTAGATAATTAAGTTTAGATAATGGTTCTATTCAAAGCTTGAATCTTCTGCTGTTCCATAGTGACAAAGACTGGCAGAAAATGGAAAGTTTTTATTTTAATAATAATAATAAGGAAATTTGCCATCGTGCTATTGCTGTAGTAGTTGTAATGATATTATGCAGCAATTAAAAATAGTTCTGGATCATCTCTCAGAAATGTTTCTATAGTGGTAAGGCACGCTCCTTGTGCAAAAAGGTGGTCACAATGATTTTTAAGCACTGCATAATATCATTGCACCTGCTGCAGCCATGGCACCACAGCAAAGTTTCTTGATTATTACACATATTATACATGAGAGTATAGTTCCTAGACATATCGTCCTAGAAAATAGCAACTTTTAATTTGGTCAGTCTTATCACACAATGTAACTACACAAGAGTTCAGCTTTAAATAGAAAAAAGCTTATTAATTTTTAAGCAAGATGCTAATGGTCTAATCCAATTTAATTATCTATGCTAAGGTAAGCTAAAACCACTCCCACCAGACCCAGAAATCAGCTGAATGTATTTAAAAATGGTGAAACTCAATTGTTTAACTCGATGGGAGTTGTTAAATGAAGCTGTTTTCAAAAATAAAGTGGTGTTCCTTTAGGATTTGCGCACTGCTTGCAGTAAATAACAGCCACATCGCCTTGTAATTGTTTTAATAGTTTCAGCTCTCGCATCTTTAATAACACTTTTAGTGGGTGGTGATAATGCACTGACTGTTTATTTAGAGAGTTTATTCAGTCATTATTCTGCTCATTTATGTTGAGAAAATGTTTATCATTTTCCTGTGTTGCAG
Seq C2 exon
TAACTCTGATCCTGCAGAGAAGCGGAGGAAGAAGAGGGCCAAGTGGCTGCTGGAAGATGCTATTCCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078050:ENSDART00000142150:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.529 A=NA C2=0.667
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:
GTTTCTCTGCGGCAAGGAGAT
R:
AATAGCATCTTCCAGCAGCCAC
Band lengths:
214-1808
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]