BtaINT0165708 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031352 | ZNF554
Description
Bos taurus zinc finger protein 554 (ZNF554), mRNA. [Source:RefSeq mRNA;Acc:NM_001105037]
Coordinates
chr7:22113300-22114072:-
Coord C1 exon
chr7:22113946-22114072
Coord A exon
chr7:22113492-22113945
Coord C2 exon
chr7:22113300-22113491
Length
454 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTCTCCCATGTCTCTTTCAGAAG
3' ss Score
9.99
Exon sequences
Seq C1 exon
GAGGTGGTGACCTTCAAGGATGTGGCCGTGGACTTCTCCATGGAGGAGTGGGAGCTGCTGGACCCTGGTCAGAGGAAGCTCTACAGAGATGTGATGCTAGAGACCTGTGGGAACCTGGCCTCTGTGG
Seq A exon
GTAAGACCAGCTGGTCCTTCTGTGTCCGTCAAGTCATGTTTGTTTAGCATCTACTGCACGTCAAGAACTATGCTAGGAAGTAGGGATTTACTGGTAAATGAGACATGCATGGTTCCTGCGCTTGTGATGTCTCCTGTAGGGCAAATGGTCTGATTCTTTCAGTATATGGCAGCCCGTGCCACTGTAGAAATGTAGTTGAGGTGTTGATAACATCTCTTGTTTCACTAGTGCCACCTGGAAAGCCCTTAAAAATTTTATGGACATTTTAATAGGTATAAAGTGGTATCCACTGTGGTTTTGATTTGTGTTTTCCTAATGACTAGTGATATTGAGTATCTCTTCATGTGTTTACTGGGCCATTTGTATCTCTGAAGAAGTGTATGATCATTTTTTAAATTAGGAAAATACAATCTTTAGCTTGGTCTTTGTGTTACCTCTCCCATGTCTCTTTCAG
Seq C2 exon
AAGCCTTGAGGAACCAGAGAACCAATTCAGGCTTTGAGGATGGCACCATATGCCTAGCATCAGCCTCTCAAGTTACCACTTTTTCTCTGTGGACGGCATATTCACTCTTTCAACCAGTGGTATCTTTCCACCTGGAGCAAGGAGAAGCCATGTGGATGGCAGGGAAAGGAACTCTGCGAGCTTCATATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031352:ENSBTAT00000000456:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGACCTTCAAGGATGT
R:
GCAGAGTTCCTTTCCCTGCC
Band lengths:
302-756
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]