RnoINT0087536 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108524525-108525409:-
Coord C1 exon
chr6:108525281-108525409
Coord A exon
chr6:108524654-108525280
Coord C2 exon
chr6:108524525-108524653
Length
627 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTT
5' ss Score
3.5
3' ss Seq
CCCTGCCTCCTTCCGGTCAGATG
3' ss Score
8.08
Exon sequences
Seq C1 exon
GCTTTGATCCATGTTTCGCTGGAGCCTCCAACATCTGTGGCCCTGGGACCTGTGTGAAGCTCCCAAATGGATACAGATGTGTCTGCAGCCCTGGTTACCAGCTACACCCCAGCCAGGACTACTGTACTG
Seq A exon
GTATTTCCAGGGTGCCCTGGGTCTGCTGAATGGGGGGAGCAAATAGGGACAGAGTGTGGGGATGCAGTCACAAGTCCAGGCTGCACAAGATCCAACCATAGTGTGCTATGGTCAGTTAGCTTAGAACACTCTCTGGGGACACAACAAACTAGATATCAACTTAGGATATGCCAGGCTGTGAGGGCCATCAGACTCTAGGAAAAATGGTCCCCATGTTTCCTCCTGCAGACCAGATCAAGGTCTCACTTGGGCTGTCCCTTGGGGACATGTTTTAAGCCAAGCTAAATCATCCTGTGTCTTCCCTCCTACTAAATATTTTTGTGTAAAAGAGAACTATCTGCTGTGGGCTTGAAGAAGAAAGGAAGTGGCTGTGGGATTGCTGAGGGAAGGGGACAATGGGCAGGGAAGAGACACTGGTCATCACCAAGGACTCCTAGTGCCCAAGAGGCTCCAGCAAGTTGGCCTGTGTCTGTCAGCCTTGGAGACTTTCATCTCGGCCTCCTCTGCTCCCTCGCCCCTTCTATGCCACACAGCACCATCCTCTAGTGGGGGAATTCTGGTGGCAGATGTCCCCAGAGAAAGGCACACTGGCCTCCATGACCCCCTTCCCTGCCTCCTTCCGGTCAG
Seq C2 exon
ATGACAACGAGTGTCTGAGGAACCCCTGTGAAGGAAGAGGGCGCTGTGTCAACAGTGTGGGCTCCTACTCCTGCCTCTGCTACCCAGGCTACACACTAGCCACCCTAGGAGACACACAGGAGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:16
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:
PF126622=cEGF=PU(83.3=45.5)
A:
NA
C2:
PF126622=cEGF=PD(12.5=6.8),PF0000822=EGF=WD(100=70.5),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:
TGATCCATGTTTCGCTGGAGC
R:
CTTGGCACTCCTGTGTGTCTC
Band lengths:
254-881
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]