RnoINT0000340 @ rn6
Intron Retention
Gene
ENSRNOG00000060429 | AABR07002065.2
Description
NA
Coordinates
chr1:65599860-65600432:-
Coord C1 exon
chr1:65600231-65600432
Coord A exon
chr1:65599955-65600230
Coord C2 exon
chr1:65599860-65599954
Length
276 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CATCTGCCTCTCTTTCTCAGTAT
3' ss Score
8.72
Exon sequences
Seq C1 exon
ATCACAGCCCACATCCTGAAGCCAAAGATACTTCCTTCAGTCCAGAAGATGGAGGAGTCCTCAGGGAGCCACCACATCTCAGCAGCAATGGAATCCTCCAAGGCAGGCCCAGCGGAGGCACCGCAGGACGCAGGGATAGACAGATCTACCCAGATCAGTTGCAGTGTGAAGGAGGAAGTCAGTGCTGATGGGCAGGAGATGG
Seq A exon
GTGAGGGGATGCAGCATCTGAACTCAAATCCCTGGGGTGTGTGGGGTACGGGGGGGGGGGTTAGAGTAAGGTGCTCTAGGAGAGGTTTTGCAGGGCTGCAACTCCTGAAATGAGTCTGGACAATCCCAGCTGAGATAAGGACTCTGGAGAGACCATAAAGCTGAATTTCTGAGAAGGAACAGGGTGATCTCCCCCATGTCAAATTGCAGAGGCGGGCCAAAGGCCAATGCAGTAACAACAGCTTGATACTCCTTCCCATCTGCCTCTCTTTCTCAG
Seq C2 exon
TATCTCCAAGCACCCTCCTTCCAGCCCAGGGCCCTGAGGGACATCTTGAACATCAGGAAACAGCCTCCGTATCGTTCCAGCCAGGAAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060429:ENSRNOT00000026540:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.799 A=NA C2=0.854
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATCACAGCCCACATCCTGAAG
R:
CTGGATTCTTCCTGGCTGGA
Band lengths:
297-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]