RnoINT0087586 @ rn6
Intron Retention
Gene
ENSRNOG00000020813 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:RGD Symbol;Acc:62057]
Coordinates
chr1:221105203-221105643:+
Coord C1 exon
chr1:221105203-221105361
Coord A exon
chr1:221105362-221105457
Coord C2 exon
chr1:221105458-221105643
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTACATCTTGACCACAGCAG
3' ss Score
4.53
Exon sequences
Seq C1 exon
CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTCGTGAGCACTGAGCATCAGTGCCAGCACCCACTGACCACACGCCTCACACGCCAGCTCTGCTGCTGCAGTGTGGGTAAAGCCTGGGGCGCCCGGTGCCAGCGCTGCCCAGCAGATGGTACAG
Seq A exon
GTGAGGCAGAGGCACAGTGCATGGCGTGGGGTGGGGACATGGGCTGTGTACCTGTCCAGGAGTTCACTTGCTGTGGTGTCTACATCTTGACCACAG
Seq C2 exon
CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACCCTCACCATCCAGGGTGAAAGTGATTTCTCCCTCTTCCTGCACCCTGATGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCAGCACTCGAGGACACAGAGGAAGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020813:ENSRNOT00000028262:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.619
Domain overlap (PFAM):
C1:
PF0068312=TB=PU(85.7=66.7)
A:
NA
C2:
PF0068312=TB=PD(11.9=7.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAGAGCCTGTGTTTCCG
R:
GGCAGATCTCCTTGAAGGCTG
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]