RnoINT0000704 @ rn6
Intron Retention
Gene
ENSRNOG00000050426 | AABR07005597.1
Description
NA
Coordinates
chr1:189837284-189837751:-
Coord C1 exon
chr1:189837646-189837751
Coord A exon
chr1:189837464-189837645
Coord C2 exon
chr1:189837284-189837463
Length
182 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
GAAAGTGCTTCTTTCTATAGAGT
3' ss Score
5.79
Exon sequences
Seq C1 exon
ATATTTAAATGTATACAAAAAGTATGACGACTTACTGGACAACACGGCTGAGCAAGACATCAGCACATTCTTGAATGATAAACATGACATTGACGACTTTGTGACG
Seq A exon
GTAAGAGATGCCACTTGGAGTTCACACCCTGGCGATATATGCTACAGTCAATTCATTGAGAAATCAATGTTTTGTTACAAGCACCAAGCTTAGTGTTGGACTAGGATTGCCCCAGGGGAAGGCTCTGGGCAATGGGTAGAGCTCAAATACTGATTGAACTATGAAAGTGCTTCTTTCTATAG
Seq C2 exon
AGTATCAACAGCATCAAAAAGAGAAGAAATGAAATTGCATCCATGCACATCACCGTGCCCTTGGCCATGTTCTGTCTTGATGCCGTGTTACTAAATCATGACCTCTGTGAGCGAGCCCAAAATCTTAAAGACCGTTTGATTCAGTACCAAGTAGATGTAAACCGGGAAACCAATACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050426:ENSRNOT00000073205:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF115273=ARL2_Bind_BART=FE(43.8=100)
A:
NA
C2:
PF115273=ARL2_Bind_BART=PD(25.0=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACGGCTGAGCAAGACATC
R:
CCTGGTATTGGTTTCCCGGTT
Band lengths:
246-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]