BtaINT0117256 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012111 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:HGNC:9349]
Coordinates
chr6:4607612-4608086:+
Coord C1 exon
chr6:4607612-4607704
Coord A exon
chr6:4607705-4607964
Coord C2 exon
chr6:4607965-4608086
Length
260 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTTG
5' ss Score
-0.23
3' ss Seq
CTGTCCTGCTTGTCTTGCAGTTT
3' ss Score
10.84
Exon sequences
Seq C1 exon
TGTTCTTCAGTGCTCAGCGAAAAGCAGTCTGAAGGATTCTTCACGAAGTTTTCAGTGCTCTGTTTGCAATACTTCCTTCAGTTCAGCATCGAG
Seq A exon
GTTTTGTGTCTGAGTTATCAGATGGCTGTTACACGATTGTGGGTCATTATTGGCATGCATGCTTTCATGCTTCTTAGTGGTTTAGTATCATATGGCTACAGAATTTCAGTGCTTTCCTTCCTCCCTGCCTAGGTAATGCTTACAATGACCCTGGAGCTCTGCTGGGGAGCATGCATTACAAAAGCCAGCCAGGATGCTAGAAATGAGTAGGTGTCCTCACCGTTTCCTCTCCCTGTTCCCCTGTCCTGCTTGTCTTGCAG
Seq C2 exon
TTTTGAACAGCACCAGGAGACGTGCCAGGGAGATGCCAGGTTTGTGTGTAAGGCAGACAGCTGTGGGAAGAGGCTGAAGAGCAAGGAAGCCCTGAGGAGACACCAGGAGAACGTCCACACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012111:ENSBTAT00000049757:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF056057=zf-Di19=PD(10.2=18.8),PF128742=zf-met=PU(66.7=43.8)
A:
NA
C2:
PF128742=zf-met=PD(28.6=14.3),PF138941=zf-C2H2_4=WD(100=61.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCTTCAGTGCTCAGCGAA
R:
TGTGGACGTTCTCCTGGTGTC
Band lengths:
212-472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]