BtaINT0007976 @ bosTau6
Intron Retention
Description
Bos taurus zinc finger protein 177 (ZNF177), mRNA. [Source:RefSeq mRNA;Acc:NM_001102550]
Coordinates
chr7:15341518-15342592:+
Coord C1 exon
chr7:15341518-15341603
Coord A exon
chr7:15341604-15342465
Coord C2 exon
chr7:15342466-15342592
Length
862 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ATGTATACATGGTGTTTTAGGAG
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTCTTCATGGTCAGAACCCTGCCAAGCCAGAAGGGAGACACACAAAAGAAAGAATGGCTGCAGGATTGCTGACAACCTGGTCACAG
Seq A exon
GTATGTGGGAAGTTACTCTATCCAAAAAAAATCACTGTTCCCAAAGGCTACATCTCTTGTCCGTGACCCAGAGCTTCACAGCCCAACCAGACTAGCCTCAGTTCAGTTCAGTTCAGTTCAGTCACTCAGTCGTGTCCAACTCTTTGCGAGCCCATGAATCACAGCACGCCAGGCCTCCCTCCATCACCAACTCCCAGAGTTCACTCAGACTCATGTCCATCAAGTCGGTGATGCCATCCAGCCATCTCATCCTCTGTTGTCCCCTTCTCCTCCTGCCCCCAATCCCTCCCAACATCAGAGTCTTTTCCAATGAGTCAACTCTTCACATGAGGTGGCCAAAGTACTGGAGCCTCAGGCTCCCTCAGTTCTTTGGGCTTCTTAGAATGGGAGAGAGAGAATGTTTAAGGAAAAGCTTCAACATTTGTTTTGTGTTTCAGATAATCCCTGAGGGTGAGTGTTAGTTCCATATTCTGCTGGCTGCCATGAAGGAAAACAAAGACTTTTTTTCACTAGGAAAAACATTGATTTTCCAAGTATTTTCTCATTCTATAATATGCTAAATCTGTACTAGATCTTGAATAAGATTAGAAGACTCCTTGCAACCTAGTTGTGGCAATATCAGCTCAGCTGTGTTAGAAAAGCTTCTAAAAACCATGATCCTGAAAGAGATGGTCCAGTGAGTGAGAACAGAAGTGGAAGATTCCAAGAACTTGGGTGAAATGATAAGAGGCCTCTGAAGAATGTCTGAGCTTACTGCACATTGGGTCTTCTCCCCAATTCCTCTCAGCCTCACCCATCATCTTTCTGGTTCAAAGTTAGAGATAGTTCTTGGCTGAACCTGAATGTATACATGGTGTTTTAG
Seq C2 exon
GAGTTGGTGACCTTCGAGGAAGTGTCAGTGGACTTCTCACAGGAGGAGTGGGCCCTGCTGGCCCCCACTCAGAAAATCCTGTACAGAGATGTGATGTTGGAGAACTTTAGGAACCTGGCCTCAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039493:ENSBTAT00000056477:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCATGGTCAGAACCCTGCC
R:
CCACTGAGGCCAGGTTCCTAA
Band lengths:
211-1073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]