RnoINT0168395 @ rn6
Intron Retention
Gene
ENSRNOG00000048394 | Zfp560
Description
zinc finger protein 560 [Source:RGD Symbol;Acc:2323078]
Coordinates
chr8:21380504-21384131:-
Coord C1 exon
chr8:21384053-21384131
Coord A exon
chr8:21383634-21384052
Coord C2 exon
chr8:21380504-21383633
Length
419 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTTATTTTTTAAATCAACAGTCA
3' ss Score
5.69
Exon sequences
Seq C1 exon
GGCTATGCAACTTAACACCAGAGGGACAATGTTTCAGCAGGATATTTTTCAGTTAAAAATATCAGATGAGATACAACTG
Seq A exon
GTAAGAGTCACAAGAGATATTTCATAATTTTCATTGAAATAGACTGGGTATTTCATGTGAGTTTCATCAAAATGTTTACAGATAAAGAGGTATTAGAGAGGAATAGCCTCCATCCACAGAAGTAGTGTCTGTAAAGGTGGCCTAATCATAGTTTGAAAGTTGAGCTCCCGTTAGCACAGGTTCCTACCTATAGCTACAGACACTGGGCTTTCAAACAGTCTCATGGAAGCAAAGGAGGCCTTTCGGAATTAGAGCAGATGGCATGATATTCTTGCAGTAGGATTTTTTATGCACATTGAGTGAGATGTAACTTAAAATGGGAAAAAGCTACATCCTCATCATGTTCTTGTCTTTAGATCACTGAAGTATACGAATACATTTGAAAAATTTTAATATCTTTTTATTTTTTAAATCAACAG
Seq C2 exon
TCAAATAGCCACAATGGAAAGGAGCTCTGTGACATTAAGCCACCTGGAGAAATCATCAAAGACACTTCATGCAGTCGGACACACATAGGTATTGAAAGCACAGCGAGCATTTATGATGGTGGTCAGTATGAACAAGTCTTTCCTACCCTGCCTAAGGAGACCTCCTCTGCAGACAGCAGTCGTGAATTAGAACAGTATGGAAAAGACTTCAGTATGACTGCAAGTACTGCTTACCAGACAACATGTGTGCAAAACAACTTCCTTGAATCCAGTGAATTTCAGCAGTCATCCCTTCAGAGGCCTGGGAAAAGTCACAATGAAGACAAACTCTTTAACTGGGTACAGTGTGGTGATACTTTTAGGCCAGTCATGAGTCATGCTGAGAATGCTCAAATATATACTGGGAAAAAATCGTATGAATGTAAGGAATGTGGGAAAAGTTTTAAATATTCTGCCAACCTTAATATTCATATGCGTTCTCACACTGGAGAGAAACCTTATCAATGTAAGGAATGTGGCAAGGCCTTTTCTAGGTGTTATCCACTAACTCAGCACTTAAAAACTCACACTGAAGAGAAGCCCTTTGAATGTAAGGTTTGTGGAAAATGCTTTAGAAATTCCTCATGTCTTAATGATCACTTTCGGGTTCACACTGGAATAAAGCCCTATAAATGTAAGGACTGTGGCAAAGCTTTCACAGGGCGTTCTGGTCTTAGTAAGCATTTACCAACACATACAGGAGAGAAGCCTTATGAATGTAAGGAATGTGGGAAAGCCTTCACTTCAACCTCAGGACTTATTAAACATATGAAAAGTCACATGGGAGAGAGACCCTTTGAATGCGACCACTGTGGGAAAGCCTTTGCTTCTTCCTCAACCCTTATTACACATTTGAGAACACACACTGGAGAGAAGCCCTTCGAGTGTAAAGTATGTGGAAAAGCCTTTGCGTGTTCTTCTTATCTTCGCATTCACATGCGGACTCACACTGGAGAGAAGCCCTATGTATGTAAGGAGTGTGGTAGAGCCTTCACTGAGCGCACAAGCCTTACTAAACACTTACGAACACACACTGGAGAAAATCCCTTTGAGTGCAATGTGTGTGGAAAAGCGTTTGCATGTTCTTCCTACCTTCATAATCACATACGAACTCACACTGGAGAGAAGCCTTATGTATGTAAGGAATGTGGAAAAGCCTTCACTGTTTCTTCACATCTAAGCAAACACATACGAATTCATACAGGAGAGAAACCCCATAAGTGTGAGGAATGTGGGAAAGCATTCACTGTGCGTTCTGGTCTTACAAAACATATACGAACTCACACGGGGGAGAAGCCCTACAATTGTAAAGAGTGTGGGAAAGCCTTCACTACATCCTCAGGCCTCCTTGAACACATGAGAAGTCACACAGGAGAGAAGCCATACGAGTGTGACCAGTGTGGAAAGGCCTTTGCTTCTTCCTCCTATCTAATTGCACATTTGAGAATTCACACTGGAGAGAAGCCCTTTGAGTGTAAGGAGTGTGGGAAAGCATTTACATGTTCCTCCTACCTTCATATCCATATGCGAACTCACACTGGAGAGAAACCCTATGACTGTAAGGAGTGTGGGAAAGCATTTGCTGTTTACTCTCATCTAAGTAAACATGTAAGAATTCATGGTGGAGAGAAAGCCTACACATGTAAAAGTGATGGAATAGTGTTCAATCATTCTCATTGTAAAGAACACATAAAAAATCTTGAGATAAATTCTTTGGTTGGAAGGAATGAAGAGACCGCTTTGGAACGTTCTATTGCTTTAGCAGTGCATCCAAATTCACAGTGGCAAGAAAGGTTATCAGTGTAAGCCATTTGTAAAGTGATTATTTTCATAGTTGACTTCAAAGACATGAAAGCAGTCATGTTGCAAAGATGCCTCACGAACCTAAAGAATGTGGGAAGTGATCAGAATGCTCAAAACACATTTCAAACAAACTCATTTTGAAGCTTCACAAAATCAGAATCATGGAAAGCCATCTCTGTTTCAATGGCTTTTTATAAGTATGTTGTATGAAACTATTGACACACAATGTCAATATTTCTGCCCATTTCTTTGACGATTACTCATAGTACCCCAGTGGAGGACTTTGTGAAAGTAAAAAATGTTGGAAAGTAATGGTTCAATAAAGTGACTCACATTTGGGAAACTTCATGTATAGAATATGGCGATTGTTTCTATGTCTTAAGATCTTGTATACTAGCAGAAACACAGCTTTTTTGGTAGTTGTATAAGCTTATTTTGGCCATTTTTTGCATTTTCAATATTTAAGATATTTTTAATATTTGTATATAATGACTTTCCAGTTTTAAAATTTATTTAAGATGTACAAAATTCCATGGAATATCTCCTGAAATAATTATTAGACTAATTAAAATGTGATACAGTAACTGGGTTTTGTTATTATGAAGCACTTTTTACTATCTCAGAAATTTCAGGTACTGCACATTATTAACTGTATCCACCAATTGTACTCTTAAGTTGCTCATTTTGTAATTGAAACTTTATACCCTTTAACAGTAACTCATAAACATTAACTAGTTAAAGACAGGCTCTCGCTGTTTAGCTCTGGAATTCACTGTGTAAACTAGCCTGGCTTTGAACTCACAGAGATTCTCTGCCTCCCAAGTGCTGGGATTAAATGCATACATTGCCATGCCCAACTACAGTCCATATTTAAATAAGGTAATATATTGTTTTTAGTTTCTGTGTGTCTGGCTTATTTTCACATAACAAAATGTCTTTTAGTTTCATCTCTGTTGTCTTGCATGACATACTTTCCTTTAAAAAATAGAAACAAGAGGGGTAGATACCTGGAGCCAAGCCTGCTTACACAACTGTCTCGGGAATGTTTGAGAAATATCAAGCCCACTTAAACCCTTTTACTAGCCAGTTGTCTGTTCTTATCACTTTTACAGTTTCTGTCTCCAGCCATCTGTTCTTATCAGTCTAGACCTGCAACTTGTGGTTTAGGGATATAGGGAGGGTGGTGACGGTAGTGGAATTGGTCCTGGGTCCAATTCCTACCTGCTTGTCTTTATAAGCCGCTGTTTTTTAAATTAAAGTTTGAGAGCTTGATCAGAACACAGACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048394:ENSRNOT00000071010:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.065
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF127602=Zn_Tnp_IS1595=WD(100=8.6),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=3.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGACAATGTTTCAGCAGGA
R:
CCTCTGAAGGGATGACTGCTG
Band lengths:
358-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]