BtaINT0164948 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031874 | ZNF165
Description
Bos taurus zinc finger protein 165 (ZNF165), mRNA. [Source:RefSeq mRNA;Acc:NM_001191376]
Coordinates
chr23:30335503-30336648:-
Coord C1 exon
chr23:30336166-30336648
Coord A exon
chr23:30335642-30336165
Coord C2 exon
chr23:30335503-30335641
Length
524 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
ATGTACTTTGTTTTTCTCAGATT
3' ss Score
9.48
Exon sequences
Seq C1 exon
GAGAGTTCTTAAAACTAAAAAAGGCTCTTCACAGAGCAGAAGCGGGATTCTGATAATACAGTTTATTTCAAGATGGCAACTGAATCAAAGAAAGCTACAGCTCAGAACCTTCAGGAGGATGAAGGACTTCTGATAGTGAAGATGGAAGAGGAAGATTTTGTCTGGAGGCAGGGTGCTTGCTTACAGAGGAATGATCCCCTCAGGCAGGAGCTCTGCCGGCGGCTGTTCCGGCAGTTCTGCTACCAGGATTCTCCCGGGCCCCGAGACGCACTGAGCCAGCTCCGGCAGCTCTGCTGTCAGTGGCTGAAGCCAGAAACCCAGACCAAGGAGCAGATCCTGGAGCTGCTAATTCTGGAACAGTTCCTGGCTATCCTGCCAGGGGATCTGCAGGCTTGGGTGCGTGAACGTTATCCAGAGAGTGGAGAGGAAGCAGTGACCCTACTGGAAGATTTAGAGAGAGGCACTGATGAAGCTGTACTCCAG
Seq A exon
GTACAAAGGGGTTGGGGGATCTAAGACCTCCAGGATGGATGGAGTCCCACATAGGGAGAAAAGGACCTGAGACTGAATATCTAGTGAGCTTTATGAAAAAGAAGTGAAAGTGAAGTCCCTCAGTTGTGTCCGACTCTTTGCGACCCCATGAACTGTAGCCTATCAGGCTCTTCTGTCCATGGGGTTTTCCAGGCAAGGGTACTGGAGTGGGTTGCCATTTCCTTCTCCAGGGGATCTTCCAACCCAGAGATTGAACCCGGGTCTCCTGCATTGCAGGCAGACCCTTTACCATCTGAGGCACCAGGCTCCCAAAGTGAGCTTTGTAGGAACTCTTATTTAGTTTAGTGTTTATTTATGGCTCCTTCCCTCTCTGCTAGGTACTATGGTACCTTTTACAATTGAGGCAGACTTAATTCTTCCTTCCCCAGTTTTGTATAACTCTGCAAGATTTTCTTTGGTTTGGGAAGATGTTTAATTCCAACTGGGATTCTCTCATAAGCCCAAATGTACTTTGTTTTTCTCAG
Seq C2 exon
ATTCCAGTCTGTGGACATGGACAAGAACCATTCAGGAGAAAAGTGGCATCTCCTGGGCCAGCACTTAGTGTCCCGTTCCAGCCAGTGGACACCACGGCCCTTCATGGTTCTTCAGAACCCCAGCTGCTACTGGACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031874:ENSBTAT00000003993:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.574
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=68.6)
A:
NA
C2:
PF0202312=SCAN=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:
CTGTTCCGGCAGTTCTGCTAC
R:
CTGGAACGGGACACTAAGTGC
Band lengths:
342-866
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]