RnoINT0110306 @ rn6
Intron Retention
Gene
ENSRNOG00000000480 | Phf1
Description
PHD finger protein 1 [Source:RGD Symbol;Acc:1303205]
Coordinates
chr20:5531093-5531939:+
Coord C1 exon
chr20:5531093-5531173
Coord A exon
chr20:5531174-5531337
Coord C2 exon
chr20:5531338-5531939
Length
164 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTTGTCTTCTCTCTTCCAGGTC
3' ss Score
14.06
Exon sequences
Seq C1 exon
CAGCCCCATCCGGATGTTCGCCTCCTTCCACCCTTCTGCCAGCACTGCAGGGACCTCTGGGGACAGTGAACCCCCAGACAG
Seq A exon
GTGAGTCTATCCTGTCAACACCAGTCCCCTCCTTTCCTTATGTGACCTTAGGCTTTAGTCTCTCAAAGGCATGGCCACCCGTCTGCCTTGAATGTTGTGTTCAATAGCATACCACCCTCATCTAACTGGCCCGTCTAGTCTTCCTGTTGTCTTCTCTCTTCCAG
Seq C2 exon
GTCACCTCTGGAACTTCACATTGGCTTCCCCACAGACATCCCTAAAAGTTCTCCCCACTCAGTGACTGCCTCGTCTTCCTCGGTCCCAGCCCTGACCCCAGGCCTTTCTAGACATTCACTGCCCCCTTCTCCCTTGTGCCGTAGTTTGTCTCCGGGGACTGGGGGAGGAGTCCGAGGTGGGGTTAGCTACCTGTCCCGGGGTGACCCTGTCAGGGTCCTTGCTCGAAGAGTGCGGCCTGATGGCTCTGTGCAGTACCTAGTCGAGTGGGGAGGAGGGGGCATCTTCTGACAGCTCACTTGTGCTCACCTCCCCATGCACACACTGGCACTTTCACGCCCTGACCTCTGACCTCACCTACAGCTGGGATGTACCTGGAGAGACGGAGTGGTTCTCCCTCCTGCCCAGGCTGGAATCCAGGGGGTTGGAGAAGAGGTCCTCTTCTCTGCCCCTTGATGACTCCTAACCCCCCTCCCATTCCCTTTGATGTTATTTTGTTACAGCTTTTGAAATATTTTTTAAGAGTATTTAACCCTGGGGTATAGAGACTTGGGGGGGGGGTCCAGGATTCCAGACTGTATGACTAATAAAGAGAAATAAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000480:ENSRNOT00000059548:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.667
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF140611=Mtf2_C=WD(100=43.3)
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:
GGACAGTGAACCCCCAGACAG
R:
CTCTTCGAGCAAGGACCCTGA
Band lengths:
251-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]