RnoINT0169476 @ rn6
Intron Retention
Gene
ENSRNOG00000005886 | Zscan20
Description
zinc finger and SCAN domain containing 20 [Source:RGD Symbol;Acc:1562996]
Coordinates
chr5:146765166-146767311:-
Coord C1 exon
chr5:146766622-146767311
Coord A exon
chr5:146765589-146766621
Coord C2 exon
chr5:146765166-146765588
Length
1033 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
GAACTCTTCACTTCTGACAGCAG
3' ss Score
4.12
Exon sequences
Seq C1 exon
GAGTTCCAGCTTCAAAGCCAAGTGTCGCCTCCCAGCACGAGCAAGGAGCAGAGACTTTGGGTCTGAGCCTTCTAAATTTTGGGACTGGGAGCGCCGCAGATGGTAGCGTGGACAGTGAGCAAGACAAGGCAGCCCGGGGAGCAGCCCAGGCAGACGCAAGGGCCTGGGTCGAGCCATGCCAATGGGGCACGGAGGACATGAAGGTGTCAGGTGTGCACTGGGGCTATGAGGAAACCAAGGCTTTCCTGGCCATCTTAAGTGAGTCCCCCTTCTCTGAGAAGCTCCAGACTTGTCACCAGAACCGCCAGGTATACCGGGCCATTGCCGAGCGGCTGAGAGCACGGGGCTTCCTGCGGACTCTGGAGCAGTGCCGCTATAGGGTCAAAAACCTGCTACGGAATTACCGGAAGGCCAAGAACAGTCGTCCACCAGGGACCTGCCCCTTCTACGAGGAGCTGGAGGCCCTGGTGAGGGCTCGGACAGCCATCAGAAGAACCACAGGTGGGCCAGGAGAGGCGGTAGCACTCGCCAGGCTGGGTGACAGCGACACTGAGATGGATGACCAAGACGAAGGGAGCTGGGAGTCTGAGGAGGCAACGCAGGACTGCAGTGGTTCTGGTCTGGCCGCCGAGGAGTCCATTCACGGGCCCAGGATTGCAGGGGGCCCAGCTCTGCTCCAGAGCCGTATTG
Seq A exon
GTAAGAACATGGCGTTTAACTGGATGAATACCAGCCAGGTTGCTGCCTCCTAAGATTAGAGCCCAGCCTATGAGTTGGATCACTGACGCTAGAGGGAGGTGCCAAGTACCTGGGCCCTCCTCAGACTCAATCTTCAATGCACTGCGCCTCTTAGTTGTAGGAGCAAATAACCCCGAAGCCTTGCTAGGCCTGGAGAGAGTCCAGTTGCTTCCAAAGGGAGTCACTCCCAGGTGGCACCTGAGTGAACCAGGTGTGTTTCTCTTAGTGTGTGTGAGAACAGCCCGTTAATTCTCAGATAGCAGGTCTGGGATAAGAAAGAGTGGGTGAAATACTAGAGTGTAGAGAAGAAACCCACAGCGTAGCCTTGACAGTCACTCACTGTGTGGCAAACACCTAATCTTGCAAAGGGAGAGTCACTGGCAGCCATCTGAAGCTTGGGAAACCACATAAGCAGGAGCAGAACCTGGGTCGCTGCCTGTTTTCATGTAGCCCCTCCCCCTGCACCTCTTTCCCCTGCTGCCTCCTTGGGTTACATCACTTACCTGAATGGAGACTGCCCCCTGGCCCTTTCCTTCTTTGACCAATGAGGAAAGCACATCCTCAGGTATGGTCTGCCACCTGGTTACTTCCTCAAGGTCCATTTACGTCTCTGATCCTTGGGGATTCTCAGATTCCATATAGTGTTGAAAGGAGGACCCCCAAAGGAGACAGGGATGCATTTTGAGTGAGTGCAGGGAGAATCTCATGGGTGATAGTCAGTCGTCAGCTGAAGCCAAGGAGGTGGGTCACTTGATGCAGTTGCTAAAGCTTGGTCGCCATGCCTCTCCTTCAGCAAGACTGGCTCTTGAAATGGTGAGAGAGGATGCCTTGCCCACTTCCCTAGCATGTCCCTGAGAAGAAGTTTGTGTTCCCAGGTCCTTGGACAGTTTCTGAGATCTGTGTTCTATACATGTAGGAGTGCAGGTGACCCCAGTCCTAATGACCTAGGGAAAGCTCTCAAGTCTCACACGTCTGAACTCTTCACTTCTGACAG
Seq C2 exon
CAGGCATGCACTGGGGCTTCGAAGAGACCAAGGTCTTTCTGGCAATCCTCAGTGAGTCCCCCTTCTCGGAAAAGCTTCGTACCTGTCACCAGAACAGCCAGATATACCGGGCCATTGCGGAGCGGCTGCGGGCACTGGGTTTCCTGCGGACACTGGAGCAGTGCCGCTACAGATTCAAAAACCTTCTTCGAAGCTACAGGAAAGCCAAGAGCAGTCGTCCACCGGGAATCTGCCCTTTCTATGAGGAGATGGACTCACTGATGAGGGCTCGGACTGTGATCAGGGCCATGGAGACGGTAGGAGAGGCCATAGGTCTTCCTGGACCTGGGCAGAGCGGTACTGAGGCTGATGACCAAGAGGCCTGGGGCGAGATGGAAGACGCGGGTGCCATTAGACTTCTGACTCCAGATTCCCAGACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005886:ENSRNOT00000008887:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.296
Domain overlap (PFAM):
C1:
PF138371=Myb_DNA-bind_4=WD(100=37.2)
A:
NA
C2:
PF138371=Myb_DNA-bind_4=WD(100=60.6)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAACAGTCGTCCACCAGG
R:
GAAGCTTTTCCGAGAAGGGGG
Band lengths:
356-1389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]