RnoINT0087601 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84134628-84135268:-
Coord C1 exon
chr1:84135143-84135268
Coord A exon
chr1:84134751-84135142
Coord C2 exon
chr1:84134628-84134750
Length
392 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TTGGATGCCCTGTCCTGCAGACG
3' ss Score
7.44
Exon sequences
Seq C1 exon
ATATAAATGAGTGTCTGGAAGGCGACTTCTGCTTCCCCCATGGAGAGTGCCTCAACACCGACGGCTCCTTTACCTGTACCTGTGCCCCTGGCTATCGGCCTGGACCTCGTGGAGCATCTTGTCTGG
Seq A exon
GTCAGTCCCCAGGCCATATCCGAGTATGGAAAAAGTGGGGTTACAGCAGGAAAAGGAGGAGCAAGGGGAAGAGGGCAGAAAGGGGACTCTGGATTTTTTTGAGGGTTTAAGGGAAATCTACCTGGACCACTGGGGGTGAAGCTTTTGGGAGGCCTGGAGGCGGCAGGATGTGTCAGGAAACATTGGACGCTGACAGCTGGAATAGTGACTGGAAAGGACCTCCGACTGGAGGTGGGGCTTGCAAGAAAAAGTGGGTCCTGAACAGATTGGGTGGGGTCTTCCTTTGAGGCTTTGGAACTTGAAGGGTTGGGATGGGGGAAGTGAAGGGGTGTGGCCTGAGGTATTAGACAGAGGAGGAGGTGGGTCTGGGTTTTGGATGCCCTGTCCTGCAG
Seq C2 exon
ACGTGGACGAGTGCAGTGAGGAGGATCTTTGCCAGAGCGGCATCTGTACCAACACTGACGGCTCCTTCGAATGCATCTGTCCTCCTGGACACCGTGCTGGCCCTGACCTTGCCTCCTGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:20
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:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAGTGTCTGGAAGGCGAC
R:
AGGAGGCAAGGTCAGGGC
Band lengths:
238-630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]