RnoINT0169493 @ rn6
Intron Retention
Gene
ENSRNOG00000012419 | Zscan29
Description
zinc finger SCAN domains 29 [Source:MGI Symbol;Acc:MGI:2139317]
Coordinates
chr3:113129236-113129992:-
Coord C1 exon
chr3:113129858-113129992
Coord A exon
chr3:113129437-113129857
Coord C2 exon
chr3:113129236-113129436
Length
421 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGG
5' ss Score
2.91
3' ss Seq
ATGGGGAGGGGTATGTCTAGGTC
3' ss Score
-3.04
Exon sequences
Seq C1 exon
GTGCTAGAGCAATTCCTGACTGTGCTACCTGGGGAAATCCAGAACTGGGTACAGAAGCAATGTCCAGAAAATGGAGAGGAGGCGGTGACACTGGTGGAAGATTTAGAAAGAGAGCCTGGAAGACTTGGACATTCA
Seq A exon
GTGAGGAGGAGGAGGAATTCAGAAGTGTGTGGTTGGGGAGAGGCAAGGATAGAGGGGCAGTTTAAGACGAGTCAGATGTAAAGAGGCTTGGTGATTTTTATACTTCTGATCTGGAAAGGGTTACTTTTTCAGGTAGGGCTTGCATGGAGACTCTGTTACAATAAGTCTTTCACTTCAGTTTCTAAAGAGAAAAAAATGGAAAAGTTTTTTTCCAACTGCTCTTTGGCTTTCTGTTTGATCTTTCTGCAGTCCCAGCCACTCTAAGCTAATGATAATGGGATAAACACTTGTCTGTCCTAACCTTCCCACCCTCCATTCTAGCATGGCTTCAGAGGATGGTCTCTTTGGGGATATTAAATAATCTCCCCTAGGAATGCCCCTTGTTATGACCATGACAACTAATGGGGAGGGGTATGTCTAG
Seq C2 exon
GTCACAGTGTCTGTGAAGGGGCAGGAAATGCACTTGGAGAAGATGACACCCCTGAAATCCTCACTGGAGTTACTAGATGTTCTGCAGGAGTCAGTGGAACCCCAGTCCAAGGGTGTATCCAAGAGAGAGAGGGCAAGAAGCCCAGCCCTGAGACTACAGGAGCAGATGAACCCGGAGGAGAATCTCAAACCTTTTCAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012419:ENSRNOT00000035889:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.672
Domain overlap (PFAM):
C1:
PF0202312=SCAN=FE(46.3=100)
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
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:
GCTAGAGCAATTCCTGACTGTGC
R:
AAGGTTTGAGATTCTCCTCCGG
Band lengths:
326-747
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]