BtaINT0164955 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040603 | ZNF175
Description
zinc finger protein 175 [Source:HGNC Symbol;Acc:HGNC:12964]
Coordinates
chr18:57902533-57904316:+
Coord C1 exon
chr18:57902533-57902794
Coord A exon
chr18:57902795-57904189
Coord C2 exon
chr18:57904190-57904316
Length
1395 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GCTGGGGTATGTTGTTATAGGGG
3' ss Score
4.06
Exon sequences
Seq C1 exon
GATTTCTAGTGTCCCTCCAGAGCCCCTGGGTCAGGCCACATCACGGAGACTGCAGGATCTCCCTACACAGCTCAGGTCGACTCTTCCTAGCAGCTCTGATTGGAGCCTTCTGATGCCCACCCAGCTGCAGGCTCCTGGAAAGAGTGTTGTTGTCAGCAAGAGAGACCAAGAATTGAAGCCCAGAAGGGACATGCTTGCTGACATGAATTTGCCCCAGAGGCCCCAGGTCTTGGGTTTAGAGGAGCAGGATGTATCGTGTGAG
Seq A exon
GTAAGCGGGAGCCACCCCCACCCCAGGGGTAGTTCTACGGAACTTGAGGGCAGACAAAGGAAGCAGCAGACTCTGGACTCCTTGTGTCAAGACAATGTGGATTCTCCGGCAGAGAGCAGAGCACTGATAGCTAATGTTTCCTCATCCACAGGCACTGTGTCTTATAGAGGAAACTGAACTGACCGATGCAGGAGGATGTGTAGGAGAAGAGGGTTGGTCCTGGGGCAAAGGAAGAAGAAACCATAGCTCCAGCCACAGGCCAGGAAATACTCACTCCTTCCTGCTCAGCACAGGCATCCTTCACCCACATGTTCATCCTCCATCCACTGCTGGGTCTTTGCATTGTTTCAGCTGATCCCCACCTGACTCCTCCTCACTGGAGATTGGCTGGTTTCTCCTCTGTCCTCAGAATTTACAGTCACAGAGCAAGAACTAGCTTTTAAGGACCGTGTGGTTTTTCCTCTTTTAAAAGATGAATAAAAGTGCTCAGGAATAATGTAGACATTGATATTTGATATTTTGGAGTGAGGAAGCAGGGTTCTTGGTTATACTCAAGATTTCCTGAAATTCCAAGTTGTTCTATGTATTTCATGACCTTTCGTGTGTTTTTAAAATAACAATGACCCACTCTAAGGACCTCATTGCTATTGCTAAGTCACTTCAGTCGTGTCCGACTCTGTGCGACCCCATAGACGGCAGCCCACCAGGCTTCCCTGTCCATGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCACTCAGTCGTGTCCGACCCTCAGCGACCCCATGGACTGCAGCCCACCAGGCTCCTCCATCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTCCGAAGGACCTCATTAAATCCTGTGTATCTCCAAATACAGACACATTTTGAGGTTCTGGGGGTTAGGACTTCAGCATATGAATGAGTGGGGGGGGGTGGGGGTGGGGGCACAATTCAGCCCATAATAGTGGCAAACACTGCCTTGTAGAAAAATGTATTTCATTTTGTGTTGGAGTTGGCTGAATTTTAAGAGCACTTCTTGTTCAGCTAAGGTGTTAAGATGCATGATATTGGGTTGGCCAAAAAGTTTGTTAAGGAACATATAGAAACCACAAACTTTGAGTCCAACCTAATCCTTATTAGCTTTGTTCTTATTTTAATATTAAAAATATTGTTTTCTTGCCCTGATTCTGATTTCATACAATATGAAACAGGTAGTTAGTGGGAAGCCATATATATCATGGTGAAGTCATTAAGAACACACCCCTGTATGTAAGTTCACCAATGATGACTAATTCTCATTGAGCTGGGGTATGTTGTTATAG
Seq C2 exon
GGGTTAGTGTCTTTTGAGGATGTGACCATGGACTTCAGCAGGGAGGAGTGGCAGCAACTGGACCCTGCCCAGAGACACCTGTATCAGGATGTGATGCTGGAGATCTACAGCCACTTTTTCTCTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040603:ENSBTAT00000052898:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.156 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
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:
TTCTAGTGTCCCTCCAGAGCC
R:
ATACAGGTGTCTCTGGGCAGG
Band lengths:
343-1738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development