GgaINT0068808 @ galGal4
Intron Retention
Gene
ENSGALG00000011963 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:HGNC:9349]
Coordinates
chr4:53673267-53676060:+
Coord C1 exon
chr4:53673267-53673450
Coord A exon
chr4:53673451-53675885
Coord C2 exon
chr4:53675886-53676060
Length
2435 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTCTCCTCCAATCATTCAGATC
3' ss Score
8.26
Exon sequences
Seq C1 exon
GAAGGCGAAAATATTTTCTATCTTGCTGTGGACGATATTGAAACAGACACAGAACTTCTGATTGGTTACTTGGACAGTGACATGGAAGAAGAGGAGGAGGATGAGGAGGAAGTAACTGTTATCCAGGAAGATGAAGACAGTGGCAACAATAAAGAGGTGCAACTAGCTGGTGAAAAAGTTGCAG
Seq A exon
GTGAGCAATATGTAAAAAATAGTATAGCTTGGGAGCTTAAAAATAGAATCATAGGATCACAGAATGGTTTGGGTTGGATGATCTTTAAAGATCAGCTAATACCACTCCCCCCTCTCCCGTCCTCCACCATGGGCAAAGAAAGCCTTTAACAAGATCAGATTGCCTGAAGTACTGTCCAGCCTGGCCATGAATGCTCCGAAGATGGGGCATCCACAGCTTCTTTGGGCAACCTGTACCAGCGCCTCACCATCCCCATAGTGAAGAATTTCTCCCTTATATCTAATCTAAATCTATTGTCTTTCAGATTAAAACCATTACCCCTTGTCCTATCACTTACGTGCCCTTCTAAAAGTCTTTCTATGTTTCTCAGAACTCCCTGGGAGGTATTGAAAGGCTACAGTACAGTCTTCTCCAGAACTTTCTCTTCTCCAGGCCCTAGCTCTCTAGGCCTTTTTTCATAGGAGAGGTGCTCCAACTCCCTGATTATTTTCATTGCCCTCTTCTAGACCTGCTGGAACAGATTCCTGTCTTCCTTTTGCTGAGTGCCTCAGCAGTATTCTAGGTGGAGTCTCAAGAGAGCGGAGTAGAGACCTGCTTGCCATGCTTGTTTTGATGCAACCCAAAGTACAGATAGCTTCCTAGGCTTTAAGTATTTACTGCCAGCTCACAGTACATACCAGTATTCCACCAGTATTCCCTGTGCTTCTCTGCTTAGCTTCTCTCAGTCCACTCACCCCCTGGAAGTAACAATGAGGGTAGTATTAACAAGGAAGAAAGAGAACATTAACTGTTTGTATTGGGTAACTGTATGGTTTCCCAGGTTAAGTCTGAGCTCTTGTATGTTTTTCATCTTATTTTCAGTTATGGATTGTAGAGCCAGAGTGACTAGCTTAGACTTCCAGCCTAAGTTACGCCTAACTTAATACTTGATATCCGTTTTCAGTAATGCTGATTGTAATCTACTCAAGATAGACTTTTTGGAAGGAGAAATAGCAGTGTGTCTGCCACCACTTCTGAGATGGCAGTGAACACATGTTCATGTACACAACAGGGACAGAGAAATCTAAAGAGTCTGTGCCAAAGTTGTGAGGCAATTGAAGTATAATGTTATAGGTTGGCTAATAAGATTAAAAATCTAAGAAGTTGTTGATAATAAATATTGAGTACTGTACAACAGTTAATATTAGTATGCAAGAGAGAAGGCAAGATGGTTTCAGAAATATGCAAGGCAGTATCTCTTAAGTACTCTTGTAAGCAAGACTAGCTCAAAAAGTAAAGACAGTGTAAATGAGCTGAGATTTTATATAACTGATTTGCTATAATCTGCATTCAGTAAACTAAGCATCTTCCTTTTTGAAGATGGTAGTGTAAATCTGTACAACTTTGGACAGAAAATAAGTGGCATCTGTGGCAGAAGGAGTTATATGCAGTCTCATTCATGATGCTGAGGAGTTGATGGGATATGATGACTGAATTTGCTTGTTAGAGTAAGGGCAGGTAGGTCTGTTGCCCACTGAATCACATCAATGTCATTCTGAAAGGAGAATGGGCAAATGTTGTCCTTCACTGATTGATTTGGCCCTCTTGCAACTGAACATTAGCTAAGATGCATTACATTATACAAGATCTCCTCTTAACATAGAACTAATATAGTGCAATTATTTCTTATGTCAGTTTCACAGATGCCTTTGTAAGATGTCTTGTGCTAATTGTAAAACTTATCTCAATAATGTTATGCTAACTATATGCTTGTCTTTTTAATATTTTGAATCAATCTCACTTTGAACTTTGATGTAGTTGTAGTATGCCAAGCTTAGAAGTGATAATGTTCATTCCAAGCTATATAAGTCTCTATTCTGTATTTGCTCACAAAAAAATATGGGAGAGGATGTGAGACAATTCCCTGGAAGGAAAAGGTTGTTAATATCAAGTCTTTCTCTTTTCTTTAAACAGAATTTGCTTATAATAGATTTGTCTTGCATCCTGGTTCAAAGTGAATCTAGAATCACTAACTCAGAAAAGTATGTTTGCATTGTATCTAAGCAGTCTACAGAGATGGTAGTCTCTGCCCCTCCCAGCTTTGAAGAGCCTGCATAACAGAAGGAGAATCAACTGTTATTAGACCTTTATTTTGTAGTATGAAGTCTTTAAACAACTGCTGAAGTGAATAAGGTTGCACAGGTAAACCTGTGGTCAAAATCTTTACTGTTGTCAGATGCCTTAAGCAGGAAAGAGCACAATTTGCTAAAGTATTAGCGTTAAATATAAATATCTATCCTTTTTTTCTGCATTTTGTTTTTTTAATCCATTGAAAGACAACGTCTCTTGTGAATTCCATGATGCTGTTGTGCATAATCAGTTTCTGTAAGAGAGTATCTCTTAACATAAACAAAATATTCCTGAAAGTATTAGTGTTTTCTCCTCCAATCATTCAG
Seq C2 exon
ATCCCCTCACTTGTAAAGAGGACCATGCATGCCCAAACTGTGAGTCCAGTTTTGCAAGCCAGGAGATTCTAGCTGAACATCTTCAGACATTGCACCAAAAACCCAGTGAGGAAAAAGAATTCAAGTGCCGAAACTGTGGAAAGAAATTCCCTGTTAAACAAGCTCTACAAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011963:ENSGALT00000019510:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.565 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0396611=Trm112p=PU(29.9=37.1)
A:
NA
C2:
PF0396611=Trm112p=PD(68.8=89.8),PF0009621=zf-C2H2=PU(78.3=30.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]