RnoINT0087593 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84138798-84139148:-
Coord C1 exon
chr1:84139017-84139148
Coord A exon
chr1:84138924-84139016
Coord C2 exon
chr1:84138798-84138923
Length
93 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
AGCCGGCTCTGTGCCCTCAGACG
3' ss Score
7.42
Exon sequences
Seq C1 exon
GTACCTCTTCCAGCATGTGTCAGCGAAATCCCCAGGTTTGTGGTCCTGGACGCTGCGTTTCTCGGCCAGGCGGCTACACCTGTGCCTGCGACCCAGGTTTCCGGCTCGGCCCCCAGGGCACTCGCTGTATTG
Seq A exon
GTGAGTTGGGCAGTGGGGATTCCGTGGAGTCGGGGCTCAGATGGAGGGTCCTCTCTCTGGCCAGCATGTAACTAGCCGGCTCTGTGCCCTCAG
Seq C2 exon
ACGTAGATGAATGTCGCCGCGTCCCTACACCCTGTGCTCCTGGACGCTGCGAGAATACACCAGGCAGCTTTCGCTGCGTGTGCGGCACCGGCTTCCGAGCAGGCCCACGGGCTACAGAGTGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=82.2),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTCAGCGAAATCCCCAGGTTT
R:
CTGCCTGGTGTATTCTCGCAG
Band lengths:
181-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]