BtaINT0165006 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007074 | ZNF192
Description
Bos taurus zinc finger protein 389 (ZNF389), mRNA. [Source:RefSeq mRNA;Acc:NM_001145131]
Coordinates
chr23:30286727-30287409:-
Coord C1 exon
chr23:30287355-30287409
Coord A exon
chr23:30287062-30287354
Coord C2 exon
chr23:30286727-30287061
Length
293 bp
Sequences
Splice sites
5' ss Seq
CTGGAGAGG
5' ss Score
0.11
3' ss Seq
CCTTGTAATTGTCAAGGTAGAGG
3' ss Score
-1.87
Exon sequences
Seq C1 exon
ATTCCCAGATGGAATTGGCATGGCAGAAGGCTAAGAAGGCAAGGAGTTATTTCTG
Seq A exon
GAGAGGATCACTTAAATGACATCCATGTCATGGTAGGGAACTTGTTAAGATATCTCAGTAAATTATTGTGACCTTTGGCTTGCCTTTACACTATTTGTCATTTTCTGTCCCCAAAGAAGTACCCTTAAAGAAGAGGCCCTCAGAAGGTTCTTCTCTTAAGAAGATAAAGAAACATAGTAGAAACGAGTCTCCTGAGCTTTTCTGGCCCTAAATGGCAGCAGAATCAAGAAAGTCTTTAGCCCCATCCCCACCAGACCAGGTTCCTGAAGAGGACCTTGTAATTGTCAAGGTAG
Seq C2 exon
AGGAAGATCATGGTTGGGACCAGGAATCAAGTCTACATGAAAATAACCCTCCTGGCCAAGAGCTGTTCCGCCTACGCTTCAGGAAGTTATGCTACCAAGAGACACTAGGACCCCGAGAAGCTCTGATCCAACTCCGCGCACTTTGCCATCAGTGGCTGAGGCCAGATTTGAACACCAAGGAGCAGATCCTGGAGCTGCTGGTGCTAGAGCAGTTCTTGACTATCCTGCCTGAGGAGCTCCAGACTCTGGTGAAGGAACATCAGCTAGAGAATGGAGAGGAAGTGGTGACCCTACTGGAGGATTTGGAAAGGCAAATTGATATATTGGGACGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007074:ENSBTAT00000065431:1
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=0.210
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0202312=SCAN=PU(97.9=67.6)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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:
TGGAATTGGCATGGCAGAAGG
R:
CAGAGTCTGGAGCTCCTCAGG
Band lengths:
294-587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]