RnoINT0087620 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84140428-84141245:-
Coord C1 exon
chr1:84141123-84141245
Coord A exon
chr1:84140593-84141122
Coord C2 exon
chr1:84140428-84140592
Length
530 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGC
5' ss Score
3.27
3' ss Seq
ATTTCCTCCCACTCCCCCAGCCC
3' ss Score
8.36
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCGCCACAGGTGGGCGTTGCCAACACGGAGAGTGTGCCAACACTCGTGGCGGGTACACGTGTGTATGTCCGGATGGTTTCCTCCTAGACTCTTCCCGCAGCAGCTGCATCT
Seq A exon
GTGAGCCACCAGGAAAGGGGGAGGGGCTCTGAAGCTGGCTCCTAAATTGCTCATGACCTTAGAAAAACATCCCAGAATATTTCTTAATTCTTAATTCCCTCAGATACTCCAAACCCTTCTAGACTTTCAGATCCCCCTTGGGTTTATTCTGGACCTTAGGTTCTCTGTGCTGATTTCAGATGCTCCACTTCCAGCCTTCTAACCTTACAGCCAAGCCCCTCATGAGGACTCCCAGGATCTTGAGTTCCTTTAAGACCTCCAAATTCTCTCGACCTCTTGACCTCTAGATAGCGTTCAGATTTTTATATTCAGACTCTCATTTATGCCTTACTGAATCCTGGGCGCTCTCGGGTCTCTCTCAGACCTCCCTAAATGCCCCTCCCACTTACTAAATCCTCTCCCAGGGGCCATTCAATCACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACAGAACCGCTGTACTTCCCACCACACCCTGAAGAATTTCCTCCCACTCCCCCAG
Seq C2 exon
CCCAACACGTGATCTCGGAGGCAAAGGGGCCCTGCTACAGAGTGCTCCAAGATGGCGGATGCTCGCTGCCCATTCTTCGAAATATCACCAAACAGATCTGCTGCTGTAGCCGCGTGGGCAAGGCGTGGGGCCGAGGCTGCCAGCTCTGTCCACCTTATGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:9
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=95.2)
A:
NA
C2:
PF0068312=TB=PU(86.0=66.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGGATGAGTGCGCCAC
R:
ATAAGGTGGACAGAGCTGGCA
Band lengths:
281-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]