DreINT0113263 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24621840-24622627:+
Coord C1 exon
chr15:24621840-24621992
Coord A exon
chr15:24621993-24622068
Coord C2 exon
chr15:24622069-24622627
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTTTTTTTTTCTTTTCACAGTGG
3' ss Score
10.18
Exon sequences
Seq C1 exon
GTCCCCAATGCCATTAAGAGTCACTATCAAAATCCCCCTCTGCTGATGGATCAAGTGGGCCTTCGAAATGGTGAGCTGGTCCCAAACGGTTTCATGGAACAAGAATGTTCTTCATCTACCCAACATTTAACCAGTGAAGAGGAGCAAGAGGAG
Seq A exon
GTAAATGCACTGAATGAATGAATTTTAAAGCGGATGTGCAAACGAATTCTGTATCATTTTTTTTTTCTTTTCACAG
Seq C2 exon
TGGCTTCGTCATGTCATTGCACTTCAGTGCAGTATTATGAAACATTTATCTGCTAAGCAGATGTCATCTTCCCTTCGGGACTCGGAGCAGGCTGATTTATCAGATGCAAAGACGCAGGAGTGTATGGAGATGCAGGAGCTCAGCTCTCAGGACTCTGATTACTTGCAGAGCCGCAGTACAAAAGTTGGCCCCCAGGGGGCCCAAGTGCTGTCCACTATTGTTCCCAAACATCCTGAGAGCTGCAATGAACAATCTAGTCAGGGTGAGGCTGACAGTCCAACAGAGAAGGGCACAGGAGTGAATGGGCCGGTGGCATGTGAAGGTGACACCTGTACGACCTCACACAAGCCCAGCAGCCCCTCTAGACGACAGAATCTTGAATCAGCCCTGCCCAACCATGTAGACATAAAGACTGAGAGCAGCAGTCCTTTCAGCTCCTGTATGCAGAGAGATAGTCCGTCTACCAGCCTGCTATCAGGCTCGCCTGCCCGTCATCATGGCTCAACTCTTGGGAACTCTTCCTCAGGGCTGAACAGCAGCTTGTCATCTCAAACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.314 A=NA C2=0.904
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGAAGAGGAGCAAGAGG
R:
CAGAGTCCTGAGAGCTGAGCT
Band lengths:
180-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]