BtaINT0165707 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031352 | ZNF554
Description
Bos taurus zinc finger protein 554 (ZNF554), mRNA. [Source:RefSeq mRNA;Acc:NM_001105037]
Coordinates
chr7:22113946-22114604:-
Coord C1 exon
chr7:22114527-22114604
Coord A exon
chr7:22114073-22114526
Coord C2 exon
chr7:22113946-22114072
Length
454 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GATCCATCGTGATATTTTAGGAG
3' ss Score
5.82
Exon sequences
Seq C1 exon
CCCTGCCTGCCCAGGAACCTGCTTTTGCCCAGGAGGGAGGACAGAATGGCTGCTGAGTGCCTGCTCCCCTGGCCCCAG
Seq A exon
GTGAGTGGGACTTCCTCTCCCCTGAAAGGCACCCAGCGTGTCCAGAGGGACACACCTGTCAGACATGGAGCGCCCTTGCCTTTTGGGAAAGGAGGAGAATTTGTCATGAGTGTCTGGGTGTAGGCATTCAGGTGGCTCTTATGTATGAGGAGGAGGTCCCTTATCCCTTCAGGAGGACTGTGCCTCCTTCCTGGGCTCCAAGCATCTCTGAAGACCCCGAAGTTTCTCCCATAGAGCAGGGAGGGGTGCCCCAAGGCGCCATCCTCTTTAAAATGCACACATATGTATTTTTTTAAATTGTGGTGAAATAGGGCAGGGAAGCCTGGCATGCTGCAGTCCATGGAATGGCAAAGAGTCGGACATGACTGAGCAACTAACACCTTCACTTTACTTTCTCTGGACATTGGTTGGTGGTGGTGGGGCGTTCTTGAGCTGATCCATCGTGATATTTTAG
Seq C2 exon
GAGGTGGTGACCTTCAAGGATGTGGCCGTGGACTTCTCCATGGAGGAGTGGGAGCTGCTGGACCCTGGTCAGAGGAAGCTCTACAGAGATGTGATGCTAGAGACCTGTGGGAACCTGGCCTCTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031352:ENSBTAT00000000456:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCCAGGAACCTGCTTTTG
R:
CACAGAGGCCAGGTTCCCA
Band lengths:
198-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]