RnoINT0168403 @ rn6
Intron Retention
Gene
ENSRNOG00000022730 | Zfp57
Description
zinc finger protein 57 [Source:RGD Symbol;Acc:1302981]
Coordinates
chr20:2016893-2018374:-
Coord C1 exon
chr20:2018268-2018374
Coord A exon
chr20:2017044-2018267
Coord C2 exon
chr20:2016893-2017043
Length
1224 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TCAAGTCTCTGTATTTACAGTCT
3' ss Score
4.42
Exon sequences
Seq C1 exon
ATTTCTAGAAGTGGGCACCAACAAATAGTGGCTAGAAGCAGTCTGGAGTAGAAGTCAAACACCTAGGACCAGCCTGGCATTCCCAAACAATGGCAGCTAAGAAACAG
Seq A exon
GTAACCAGAGCCCTGAACTCCGTGGCCTGGGCTTTGAGGGAACTAAAGCTTTTGATTGTGAAAGGAGAATTTGTTTGGACCGTTGAATGGTCAAGGAAGACAATCTCTTTTAGAGTAGATACTTTGGTTACAGGAAGCACTGTCAGATTCTGGGGCCCTTGTAGGAACCCTACAGTCGCCTAGCTCTTGAGAAATAGCTTTAGGATCCAGACCAGAAGGTTCTAAAAGTAGAAAGGGACCCCACTAAAGACATGTTGCTTCATAGAAACCCCAAAGGAAGGCTGGGGTGGAAGGGACTGGGGAGACGGCTCGGCTTGTTGTAAAGTACTTGTTGCACAAAGTTGAAGACTCAATGGGGGAATCTTCAGTCCCCACGTTAAAACAAACAAACGGAAGAAAGAAAGGTCAGCAGGATAATCCCAGAGGCTTCCTAGCTAGACACTCTTGTCGAGTTGGTGAGCTCCGGATTCAGTGAGAGATTTCTCAAAAAGTGTAGATAGAAGAAAATAGAGGAAGGCGCACACGTGTATAACTCGGAGAGACTACCAGTGAAATCCAACAGCAGAAGGGAGATGGCCGGGTAAAGAAGTGGTAGGCCCTAGACCCTCTTGACGTCTTTTACCTGCCTGTGGATCAGGCCAAAAAATAGAAAAAAGGAACTGCAAGATCTTCTCTTATCTCCCATACCACCTTGGAATCCTTCATGGGTTTTGTCAAAATAGCAACACTTTTCTTTCTCACAGTTTAGAGGGTTTCTTTTTCTGTACCATCCTTTGCTTTCCGTATGTCACAGCTCCTGACTCCGTGCCTTTCCCCCATAACCTTTCATGGTATTATTTTTCTCTTGGGCTTGAATTCTCTAAATCTTAAGAAATGTTAGTATTTTATAGTCCAAGTGAGAAACTTACACACCAGCATACACATACGGCCAAACAATAGTCCTTTATTTAAGCTGGTGACCAGGAGCAGCCTAGTGCCTTGGGAAAGCTCTTGGCAGGGAAGCTCAGGGGTACCGTGTTTATAAAAGCAAAACCACATCCTTAGGGATCGGCTAAGGGGATCTGTAATATGTGTTTTGCTACACACTCGGCAGGGTTTTTTGGTTATGCATTTGGGCTATGGTCAGGACCTGAATGCATTGCCAAGGCAGATGTGATAGATAGTTCAGAGGCTTAGGGACTTGAAAACTCCCTGAGCAGACACTTCAAGTCTCTGTATTTACAG
Seq C2 exon
TCTAAGTCTGCCAAGGCGTTAAGGACAACAGTCAGATATGAGGACGTGGCAGTGTCTTTCACCCAGGAAGAATGGGAATATCTGACTTCTACACAGAAGACCCTTTACCAAAAAGTGATGTCAGAAACCTTCAAGAACCTGACATTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022730:ENSRNOT00000011704:3
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=0.020
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GGCACCAACAAATAGTGGCTAGA
R:
CCACAAATGTCAGGTTCTTGAAGG
Band lengths:
245-1469
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]