RnoINT0000339 @ rn6
Intron Retention
Gene
ENSRNOG00000060429 | AABR07002065.2
Description
NA
Coordinates
chr1:65600231-65600888:-
Coord C1 exon
chr1:65600505-65600888
Coord A exon
chr1:65600433-65600504
Coord C2 exon
chr1:65600231-65600432
Length
72 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TGTAACATGCTTCTCTTCAGATC
3' ss Score
8.63
Exon sequences
Seq C1 exon
GTAGGACCCTCTGTCACCTCCAAAAAGACCCTCAAAACAAGAATGCCATCTCCTCTGGGTACCCCACACCTATCCTTCAGAGACTCCAGGACCACCCTTGAGGAGCCTGAGGCTGCACGACTCCATTTCCGGGGTTTCTGCTATGAGGAGGTTGAGGGACCCCGAGAGGCATTGGCCCGGCTTCGAGAGTTGTGTCACCAGTGGTTGCAGCCTGAGTCATCCTCCAAAGAGCAGATGATAGAGTTGCTGGTTTTGGAACAGTTCCTGGGTGTGTTGCCTCCTGAGATCCAGGCCTGGGTTCGAGGACAGCGACCAGGAAGCCCCGAGGAGGCCGCTGCCCTTGTTGAGGAGCTGCAGCATGATCCTGGACAGCTGCTGGGCTGG
Seq A exon
GTGAGTGCAATGACATTAGCTTCTTAAAGGGACAGATTGAAGGGAGAGCCCCTGTAACATGCTTCTCTTCAG
Seq C2 exon
ATCACAGCCCACATCCTGAAGCCAAAGATACTTCCTTCAGTCCAGAAGATGGAGGAGTCCTCAGGGAGCCACCACATCTCAGCAGCAATGGAATCCTCCAAGGCAGGCCCAGCGGAGGCACCGCAGGACGCAGGGATAGACAGATCTACCCAGATCAGTTGCAGTGTGAAGGAGGAAGTCAGTGCTGATGGGCAGGAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060429:ENSRNOT00000026540:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=NA C2=0.799
Domain overlap (PFAM):
C1:
PF0202312=SCAN=WD(100=82.5)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGATCCTGGACAGCTGCTG
R:
TCTGTCTATCCCTGCGTCCTG
Band lengths:
171-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]