BtaINT0165069 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007714 | ZNF235
Description
zinc finger protein 235 [Source:HGNC Symbol;Acc:HGNC:12866]
Coordinates
chr18:52558912-52559972:-
Coord C1 exon
chr18:52559846-52559972
Coord A exon
chr18:52559005-52559845
Coord C2 exon
chr18:52558912-52559004
Length
841 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CCCCACCTTTTTTTTCTCAGGGC
3' ss Score
10.1
Exon sequences
Seq C1 exon
GAGGCATTGACCTTCAAGGATGTGGCTGTGACCTTCACCGAGGAGGAGCTGGGGCTGCTGGACTTGGCCCAGAGGAAGCTGTACCGAGACGTGATGCTGGAGAACTTCCGGAACCTGCTGTCCGTGG
Seq A exon
GTGAGGATGGCGCCCTGTGACTTGGCATCACCCCCGTAGGGTTCCCTACGTCGGCACTACTGACTTTTGGGGCCAGATGATCTGTCATGGAGACTGTCCTGAGCATTTTAGGATGTTTAGTAGCGTCCCTGGCCCTCTGCCCGCTACTTCAAGACTGGGACTCCTCAGAGACCAGTTTTCCAGTCCCTTTGGAAAACAGAGACAAAATGTTCCTAGTCTTTGTTCCAAGGTAAACATTAGTCTTTTGTAAATGAATTGTGTGAACAGTCGAGCTTGACTGCACCTGGCTCCTTATTTCATATTATAGCTTGCTTTTTTTAAATCCCAAATTTAACCCTCTCCTTGAAACTTCCCCAGGTGGTCCAGTGGTTAAGAATTCGCCTCCCAATGCAGGGGGTGTGGGTTCGATCCCTGGTTGGGGAGCTAAGATCCTACATGCCTTGCAGCCAAAAAAAAAAAACACACACAAAACCCTTTCCTATTATATCTTTTGTAAACTTGTGGGTCCTGATCCATTGGTGCATCATGAAATTAGTAAATTGCTTTAGCATTCTTACCATAATGTAGAATAAAGTAGCAACATCAGAGCCCCTTGGCCAGAATGGTGCACATTGTAGCGGTAACTGCAGTGCTTACAGTAAGGAGTGTGGGAGTCTACAAAGGATGTGATGACCACAACGAGAGCCAGGTCATTCTGGCTTTTATTTCAGTAGTTTGTGTGGGGTAGTCACTAAGGAGACTATATGTATTTTTCACAGTGGGTCTGATGAAAAATGTTCATCATGGGATTGGAACCAGAATTGTTCAGTACTTCCCCCCCCCCCCACCTTTTTTTTCTCAG
Seq C2 exon
GGCACCAGTCCTCCAAGCCAGACATGATATCTGAGTTGGAGAGAGAGGAGTTCTGGATGACAGAGATCCAGCCCCAGAGAGGAGGGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007714:ENSBTAT00000010143:1
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=0.406
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
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:
TTGACCTTCAAGGATGTGGCTG
R:
CTGAACACCCTCCTCTCTGG
Band lengths:
214-1055
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development