RnoINT0087555 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108501641-108502379:-
Coord C1 exon
chr6:108502098-108502379
Coord A exon
chr6:108501791-108502097
Coord C2 exon
chr6:108501641-108501790
Length
307 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCTTTCTGACCCTCTCTTAGAAC
3' ss Score
8.08
Exon sequences
Seq C1 exon
AGGTCTATGCTCAGCTGTGCAATGTGGCTCGGATTGAGGCAGAGAGGGAAGCAGGGATCCACTTCCGGCCAGGATATGAGTATGGCCCTGGCCCAGATGATCTACCTGAAACCCTCTACGGCCCAGATGGAGCCCCTTTCTATAACTACCTGGGCCCTGAGGACACTGTTCCTGAGCCTCCCTTCTCCAACACAGCCAGTCATTTGGGAGACAACACACCCATCCTTGAGCCTCCTCTGCAGCCCTCTGAACTTCAGCCCCACTATATCCCCAGCCATTCAG
Seq A exon
GTATGTGTGGCAACACTGGAGAAGAGATGGGCACCGCAGTTCCCCTCACCCCATCCACCTCCTGCCAGGCGAGGACAGGGAAGTGGACAGACACTGGTCACAGTCGACCAAGCCATCACTCCAAACGGCTTGGGCCAGACACTGCCATACGTGGCTATCACCCCAAACCTTCAGGAGAGTGTGACCTTTGTTGCAGGTTCTTTCTCTGGGGCAGTTGTGGTCCTCTGACACGGCCCCACCCTCGGCACTCAACAGCGACCATCTTTGTACTAGGTCCTCAGGCTTATTCTTTCTGACCCTCTCTTAG
Seq C2 exon
AACCCCTGGCTTCCTTCGAAGGCCTTCAGGCTGAGGAATGTGGCATCCTGAATGGCTGTGAGAATGGCCGCTGTGTGCGTGTGCGCGAGGGCTACACTTGTGACTGCTTTGAAGGCTTCCAGCTGGATACAGCCCTCATGGCCTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.545 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=5.3)
A:
PF0000822=EGF=WD(100=60.8),PF0764510=EGF_CA=PU(0.1=0.0)
C2:
PF0000822=EGF=WD(100=60.8),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGAGGCAGAGAGGGAAGCA
R:
GCAGTCACAAGTGTAGCCCTC
Band lengths:
357-664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]