RnoINT0144285 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7236749-7237122:-
Coord C1 exon
chr16:7237029-7237122
Coord A exon
chr16:7236908-7237028
Coord C2 exon
chr16:7236749-7236907
Length
121 bp
Sequences
Splice sites
5' ss Seq
AATGTTAGT
5' ss Score
-1.83
3' ss Seq
CTTATTTATAACCCACACAGGCT
3' ss Score
4.3
Exon sequences
Seq C1 exon
GTGTGTCTGCCACGATGGTTTTGAAGGTAATGGTTTCTCCTGCAAACGCAGCAGTCCTTGCTCTCACCCAGACCGCGGTGGCTGCTCCGAGAAT
Seq A exon
GTTAGTTCCTCTCTCTCGTTCTCTCTCCTTACCCTTTTACTGACCCTGGGACAAGATGGGGCTCCTTGGTCTCCAGCCATGACCGTGCCAACCCCGAGTCACTTATTTATAACCCACACAG
Seq C2 exon
GCTGAATGTGTCCCTGGAGACTTGGGTACCCACCAATGCATTTGCCACAAAGGCTGGAGTGGGGATGGCCGCATCTGTGTGGCCATTGATGAATGCGGGCTGGATACTCGAGGTGGCTGCCATGCGGATGCTCTTTGCAGCTATGTGGGGCCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129472=EGF_3=PD(43.8=43.8),PF0000822=EGF=PU(31.4=34.4)
A:
NA
C2:
PF0000822=EGF=PD(62.9=41.5),PF129472=EGF_3=PU(52.8=35.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTGCCACGATGGTTTTGA
R:
GCCCCACATAGCTGCAAAGAG
Band lengths:
242-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]