RnoINT0087539 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108514828-108516044:-
Coord C1 exon
chr6:108515925-108516044
Coord A exon
chr6:108514951-108515924
Coord C2 exon
chr6:108514828-108514950
Length
974 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
CTCTTGGACTTTATCCACAGATA
3' ss Score
8.77
Exon sequences
Seq C1 exon
ATATCAACGAATGCCGTCACCCTGGTACCTGCCCTGATGGGAGATGCGTCAACTCCCCTGGCTCCTACACTTGTCTGGCCTGTGAGGAGGGCTACATAGGGCAGAGCGGGAACTGTGTAG
Seq A exon
GTAAGGGCTGAGTGCCAAGGCACCGGGACAGGGGAGGGTGTCATTTAGCCTTGCGATGGCTGGTTCACCCCACACACCCAGAGGGGAAGAGGTGGGCAGACAGAAGTGGCTTAGAGAGTACTGTCCTCCTTCATCCTGCTGGAGTCTTAGATGATGCTGAGTACGATGTGGGTGTGCTTTCCTTGTGGGGTTCTGCCCTCTGAATCAGCCAGGGTGGGGCCCTCCTCTGCTGCCTAGCCACATCCGTTCCAAAGCTCTATCCCAAAGTCCCAGGAGCTCCTGCGGTTCACTTCTGTTGACTGCCTTAAGAAGCCTCAGGGTCTTAGGCTGGAGAGAGCCAGCCACCAGGCCCCCTGGCTACACTAGAGCACTGTATAAGGAGAGCCTCCCACCGATTAGCCATGGCACTTCTTGTTCCCAAAACAATTCTGTGACAGTGGGAAGGAGTGCTCTTTCTCCTCAGCCCCCGCAGGGAAAGGGCCCAAGGTTCTGATTCCAGGAGGAGCCATGTTTTGAATAGATGCTTTGAGGCTCTGGGGAGGGCAGATGGTTCCCAGGCCCTCAAGACAGCCACAGCCACCCAGGCATGGCCTGGCCTCTCTCCACACTGCCCGCCCACGGACTGGAACTGTTCCTTGGGTATGGAACATGGGAATTTTTTTGGTGGCAGGTGAGAGACTAGAAAGGATGAGGCCCATGATGGAATGAGTCAGGGGTCTGGGACACCTTATTTCCAGCATTCTCAGTGGGTTCATTGAGACTATGTAGGGTGTCTGAGGAACACTCAGGAGGGTATGGCCCTGCTATGCCTAGATGAAACAAAGGGGCGTGGCTCTCCAAGGGTGGCTGGCCTGCCTTCCCGCTGAAGGCTGGTTCCAAGGGGGCTCATAATAGAGAGGATCTATGCTTGCTATGGTGGGGAAGAGGGCGAGGAGGAGGGGAGGCCAGTGCGCCCTCTTGGACTTTATCCACAG
Seq C2 exon
ATATGAATGAGTGTCTGACCCCCGGGATATGTGCCCATGGAAGGTGCATCAACATGGAAGGCTCCTTTAGATGCTCTTGTGAGCCAGGCTATGAGCTCACCCCAGACAAGAAGGGCTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:19
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=95.1),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:
GAATGCCGTCACCCTGGTAC
R:
CGGCAGCCCTTCTTGTCTG
Band lengths:
233-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]