RnoINT0169036 @ rn6
Intron Retention
Gene
ENSRNOG00000004104 | Zkscan7
Description
zinc finger with KRAB and SCAN domains 7 [Source:RGD Symbol;Acc:1305242]
Coordinates
chr8:131938038-131939733:+
Coord C1 exon
chr8:131938038-131938203
Coord A exon
chr8:131938204-131939659
Coord C2 exon
chr8:131939660-131939733
Length
1456 bp
Sequences
Splice sites
5' ss Seq
TCGGTACTC
5' ss Score
3.1
3' ss Seq
AGTTCACCTTTCACCCCCAGATC
3' ss Score
8.9
Exon sequences
Seq C1 exon
GTTTCACCTCCAGTACAAGAACAGGATGTGCATTTAAAGAAGATGGTAGCTCTGCGTGCCACAGAGCAGTCGCCTACCTTAACCTCTGGTTGTTGCTCAGCCCCTGATGACCTCTTGAATCCTCCCTGTGACCCAGGAGCACACCACTTCCCCAGTGGACACTTCG
Seq A exon
GTACTCATCTCCTCAGTTCTGCCCCCTAGAGTCACTTTCTTACATCAGCCCAATTTACACCTCACTGAAATTCCATGTCACCCTTACAGCAGGCCTCCTTCCTCAGTGACCCTTTTGCCTATTCTCTAGTTGAGCATGTACTTACCAAGTTTTCCTCAAGCAGGAGCAGTCTCCTACCTCACTGGGGACCAGAGACATGCAGTATACTATGATTGTCTTTTAGAGTTCTTATGGGTGGCAGGGTGGCAGTCATACACATAAACAGAAGCAACCTCATAAGATACGTTTGGGTGAAGCCGGGCATAGTGAATCCCACCTGTTAGTCCAGTACTTAGAAAGCTAAAGCAGGAGAATTTCTGAGAGTTGAAGGCGAGCCTGGACTACTTTGTAAGTTTTGGGCTAGCCTGTGTCAAACAAAATGCACAACAAAAACCCAGCTACCACAAACAAAAGATAGATCTGGGTGGTATTTGTCCCTAGGCATAACCCTGGCAGTGTAAAAGGGGATTATTAGATACAGTGCCACACGAGGCACAGTAGATATGGGGTACTTGAGGAACAAGCAAGAGATTTAACTGCTAGAAAGTGGAAAATGGAGGACACAGTGCTATATGCCCTTAATCCTAGCACTTAAGCAGAAGCAGACAGATGTCTGTGAGTTGAGGCCTGCCTGATTTATATAGCAAGCTCAAGGCCAGCCAGGGATACATAGTGAGAGTCAGTTTTTAAAAAGAACAGAGAGAGGGAGAGGTGGGGGAGAGAGGGAGAAGGAGAGAGAGAAAATGAGAATGAGAATGAATTTGCTGTGTTCAAGATGCAGGCATGTGGCAGGTCTGAGAGATCAGTGAGGGCTGGGAGGTATGACTAAAGCTGGGAAGATGAGAAGGGTCACTGATGGAGGGAGACGGAAGCACAGAGCTGGGCTCCAACACTGCTCCAGATGGCTGGAGGCCGGCTGAAGAGATGGCTGAGGAGTGAAGGCACTGGCTGCTCTTGCAGGCTCAATTCCCAGCACCTACACAGTGGTTCATCACCATCTATAATTCCAGTTCCATGGGATCCAACACCACCTTCTGGTCTCCGTACCAGGTGATGCACAGACAGATGTGCAGACAAAACACCCACACCTATTACAATAAAGATGTTTTTTTAAAGGCAGGAGTGTAAATCAGTCTTGGAAGTGGTAAGAAAATTAAGGCAGAGAGACTATACTTCGAAGTAGTGCTTCAGACAGGTTGGAGAGGTTCCTGGAAGGAACCCCCCAGTTCTCAGTTTGACAAATATTGCCTGTTGTGCCCTCTGAGGAACATTCTCAGCATACTTAGGATGAGGACTCTAGGAAGAAGGTAAGAGTATGTATGGAGTTTCCTGGATGCCTGCAACCCCACCTTAGGCACATGGATCTTAGGGAGCTGAGAGCAGGGCTTGGCCCACTGAGTTCACCTTTCACCCCCAG
Seq C2 exon
ATCCTGCTTTTCCCAGAGTGGGGAACTCCAGAGCCCAGGCAGTGGCTAGTGTGCTTAGGATGGTCAGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004104:ENSRNOT00000043784:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.536 A=NA C2=0.520
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PD(1.0=1.8)
A:
NA
C2:
NO
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:
TTTCACCTCCAGTACAAGAACAGG
R:
TGAGGCCTGACCATCCTAAGC
Band lengths:
238-1694
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]