BtaINT0164635 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003575 | ZKSCAN4
Description
zinc finger with KRAB and SCAN domains 4 [Source:HGNC Symbol;Acc:HGNC:13854]
Coordinates
chr23:30191773-30193866:-
Coord C1 exon
chr23:30193444-30193866
Coord A exon
chr23:30191915-30193443
Coord C2 exon
chr23:30191773-30191914
Length
1529 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
AATAAATGAATGACTTTTAGGTC
3' ss Score
5.75
Exon sequences
Seq C1 exon
ATGGCTAGGGAATCGAAGGAAAGCGCAGCTTTGGACGCCCAGTCTGCAGAGGACCGGACGGGGATCCTGACCGTGAAGGTGGAAAAAGAGGACGCCTCCGTCTTGGCTGCAGAGGCGCGCGCCCCAGGCAGCCCGGCTCCGAGCCCCGAGCACTCCCGCCAGCGCTTCCGAGGCTTCCGCTACCCGGAGGCTGAGGGGCCCCGCGAGGCGCTGAGCCGACTTCGGGAGCTCTGCCGACTGTGGCTGCGGCCTGAGACGCACAGCAAGGAGCAGATGCTGGAGCTGTTGGTGCTGGAGCAGTTCCTGACCATCCTGCCGACGGACCTGCAGAGCTGGATGCGGGAGCAGCATCCAGAGAGCGGGGAGGAGGTGGTGGCGCTCTTGGAGTATCTGGAGAGGCAGCCGGATGGGCCGATGCCGCAG
Seq A exon
GTAGAACAGGTTTAGTGTCTGCAAGCTGTGGTCGGCTTCTTCCTGAAATCTCAAGATCAGAGTGAGGGGCTTTTCTTTAAGATCCAGAAATTCTCCGTCTCTTTTGGTACTATAAACCTCTTTGACAGTAAGGTGAAGTCTCTGGACTCCTTCACATAATAGTATTTATTAAATACCTGAAGTAAAATATAAAGAATTAAAAGCAACTCAATTATATTGAAATACAGTTAGCAAAGTAGTAAATGTATGGTAACGTTATATATATGCTTTTAAAAATTAATGCACTAAAGAGTGAGATCGAGGGACAGGCCTAATAACTCTAGTATAATTTCAAAGTGGTGGTGAATATCTTTTATTAACATTTACTTGGTTGTAATGTGATGTGAAAACACCTCCAGTTTCAATTGGTGACAGTCTTTTGTACTGTCTGTAACATCTTGGTTTGTTGCTTCTGCTCATGATTGAATGAAATAATGAATTTTGCTTAGAGTCTAGTAAAAATAATTTTTCCTATTCATATTCATGGAATACTTAGGAGCGAATCTGTGGACCACAAGTTAGAAACCCCTGGGTTTGTATTTATTTACATCTTCCTGAATATTGTGTAAGACTAAGTTCCGTTTCAGAGAAGGCAATGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGGTAGGCTGCAGTCCATGGGGTCGTGAAGAGTTGGACACGACTGAGCGACTTCACTTTCACTTCTCACTTTCATGCATTGGAGAAGGAAATGGTAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGTACAGAGTCGGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAGCAGCCCTGTAATAGAAGAATCACTTCAAGTTTCAGCTTCAGGCTTTTCATTTTTTATAGTTGTTGTGGGAAATTCTAAGCTGCACATGAGCTAATGATTGTGACAGTGGCTTGAAAACCCATTAATTACAAATGTCTGGAAGGAAACCTGCATTTAATGAGGACGTACCATCACTAGGCCCTGTGTTAGGTGATTTCACACACTGGGTTCTTATTTGCTGGTTTGCAAAGCCCTGCAAGCTAGAAATTATCTTTTTTTTAGGATAAGAAAACATATTCGTGTTCTCTGAGAACTTAGCACCAGTTCCCAAAGAGTTTTCACAAAATCACAAATATAAATAATGAGGGAGCACAGAGTAATGGTAAAGAACGTGGACTCTGGAGTCATTCTGCCTAAGCTGGATGACCTTGGGCAAGTTGCTTTAACACTGTGCCTCAGTTTCACCATTACAAGAATGCAGATAATAAAAATACCTAGCTAAGGTTGTTGCTATCTGCATTAAGTTAATATTCATAAAACTCTTAGAAATAATGAATAGAAAGGAAATAGAAAGTACTGAGAAATAGAAAGTACTGGCACATAGAGAATGTTATAGAAGTGTCTGAATAAATAAATGAATGACTTTTAG
Seq C2 exon
GTCCTAGGTGGTGGCCAGGAGCAAGAACTGCTCTGTTGCAAGATGGCAGTGTTGACACCCATTCAGAGGCCACAAAATATCCAGTTCCAGCCAGTGAAGGCTCTGCTCAAGCGTGAATCTCTGGGATCCATTCCAGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003575:ENSBTAT00000004651:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.436 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=66.7)
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
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
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:
CTTCCGAGGCTTCCGCTACC
R:
CTTCACTGGCTGGAACTGGAT
Band lengths:
358-1887
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]