BtaINT0165184 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001486 | ZNF280D
Description
zinc finger protein 280D [Source:HGNC Symbol;Acc:HGNC:25953]
Coordinates
chr10:53779946-53780987:+
Coord C1 exon
chr10:53779946-53780103
Coord A exon
chr10:53780104-53780886
Coord C2 exon
chr10:53780887-53780987
Length
783 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGT
5' ss Score
8.78
3' ss Seq
TTTTCCCCCCCCACTTTTAGCCA
3' ss Score
9.1
Exon sequences
Seq C1 exon
GTTTATGAACCACATGAAACATCATTTGGAACTTGAGAAGCAGAGCAGTGAAAGCTGGGAAAACCACACCACCTGCCAGCACTGCTACCGTCAGTTTCCCACACCATTTCAACTGCAGTGTCACATTGAAAGTACACACACACCCCATGAATTCTCTA
Seq A exon
GTAAGTTACAGTTTCATTTAAGTATTGCGTATTTGTTGATTTTTAACAATATAAACTCTGAAAAGAGTTTGTTACTGAACTCTGAACAAGTGTGGTAGAAAAACAAGAATAAAAAAAAAACTGGAATTTGAGAGTAAAGTTGAAAAAGTTAATTTTTAACTTATACAGTTTTTTAATAAAATTAGTTACTGAAATTCCATCTTAATAAATAATTCATTATGGTAAATAACTTGTGCATTACATGTGGAGGACTAAATTAGAAGGCTCAGATCATAGTTTTCAAAGTGCAATCAATGCCCTTCTTTTAAACTTGAGTAAGAAAAGTAAATACAGTGTTAGTTAAAATCACATACTTTGGATCAAGACAGCTTGGGTTCATATCCAAGCTCTGCCTCGTAATATGTGATTCTAATGTGATCTCTAGCAGGTCACTTAATATTTGAATAATGGGGATGATAGAAATACCTGCTTCATAATGTTTTGATGGGAATTGAGTGAGTTAGTCAAGTCCTTAGAACTGTGCTTGGCCACAGTAAACAACTATGGAACTGTACACCATCACCACCACTGCCAATATTACTACTAGTATTGTTGATATAGATATACAAAATGAATTGTAAATGTATGTATCTGATTTTGTTTCTTTGCCTTGAGAGGATTTTTTCTTTTAAACTGAAGTGTAATTGACATTTAACATTGTATTAGTTTCAGGTGTACAATATAGATTGAATACTTATGTGTATGTATATAATGATACAATGTCTTTTCCCCCCCCACTTTTAG
Seq C2 exon
CCATTTGCAAAATATGTGAATTGTCATTTGAAACAGAGCATATCCTTTTACAACATATGAAGGACAATCATAAACCTGGTGAAATGCCATATATTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001486:ENSBTAT00000001949:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139091=zf-H2C2_5=PU(12.0=8.8)
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:
TATGAACCACATGAAACATCATTTGG
R:
GGCAAATATATGGCATTTCACCAGG
Band lengths:
254-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development