BtaINT0164916 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004620 | ZNF133
Description
Bos taurus zinc finger protein 133 (ZNF133), mRNA. [Source:RefSeq mRNA;Acc:NM_001110090]
Coordinates
chr13:38717152-38717773:+
Coord C1 exon
chr13:38717152-38717278
Coord A exon
chr13:38717279-38717677
Coord C2 exon
chr13:38717678-38717773
Length
399 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TTCTCTTTTCCTCTGAGCAGGCA
3' ss Score
8.25
Exon sequences
Seq C1 exon
GCACACATGGCATTCAGAGATGTGGCTGTGGATTTCACCCAGGATGAGTGGGTGCTGCTGAGCCCAGCTCAGAGGTCCCTGTACCGGGAGGTGATGCTGGAGAACTACAGCAACCTGGTCTCACTGG
Seq A exon
GTAAGCCTGCATCTCTTAGGACCCGGGTCCTGGCTGCTGGCAACTTGGAGCAGCCCTCTTGCTTTCTGGCCTTACCTTTGGGTTGGACTCCAAAGCAGAGACACTCTGTAAACGTGTACAGCTGTGTATATATGTGTGTGATACTCCGCATTTCTAGCCTTCTCCCGCAGGCTCTCTGGTAAGCCTGGCATCTCTTCCTAGTCAGTATCTTCTTGTAAACGAGGGAGGTGTTCTCTCACAGCATGAAGTCGGGTCAGTGAACTCCCATCCTGGCTTCCCTTCCCTGGGGGAGCTCACCACTCTCACATCTTCCCCACCACCTTTAGAAATCCTCCCCGCTGGTGTGGCTCTGAGTGCAGGATAACCTGCAACCATCTTGTTCTCTTTTCCTCTGAGCAG
Seq C2 exon
GCATTCCGTTTTCTAAACCAGAACTCATCACCCAGCTGGAGCAAGGGAAGGAGACCTGGAGAGAAGAGAGGAAATGCTCGCCCGTCAGCTGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004620:ENSBTAT00000039401:3
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=0.030
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=100.0)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACACATGGCATTCAGAGATG
R:
CTGACGGGCGAGCATTTCC
Band lengths:
215-614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development