RnoINT0087565 @ rn6
Intron Retention
Gene
ENSRNOG00000020813 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:RGD Symbol;Acc:62057]
Coordinates
chr1:221106510-221108515:+
Coord C1 exon
chr1:221106510-221106608
Coord A exon
chr1:221106609-221108389
Coord C2 exon
chr1:221108390-221108515
Length
1781 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CGGATACCCTCGTGCCACAGAGA
3' ss Score
4.96
Exon sequences
Seq C1 exon
AGCTGATCTCTCGCCCCTCCCCACCTACCTTCCACCGATTCCTGCCAGACTTGCCCCCATCCCGAAGTGCGGTGGAGATCGCCCCCACTCAGGTCACAG
Seq A exon
GTAAGGCCTGCCAGCAGGGCCACATCCTGAATAGGCTACACATCCAGCTTAGCTTTCCTCCTTCCAACACTCCGTAAACTAACAGGCTAGCACTTGCCCAGAACTTGGAGCTGGGGAAGGTCCAGTGATCAGGAGAGGGGTCGCTTTGCTTTCCAGTGGGCCTGTTAGTGTGATGGCCAGCTCAATTGAGAGTCTTCATCATTCAACTTATATTTATTGAGCACCTACCATGTGTCTCCCAAATAAATCCCAACCAAAGCAAACAGATTGAGCTTGGTGTGGTGGCTCGCACCTGTAATCACAATACTCAGGAAGTGAAGGCAGAAGGATTGCCTAGAGTTCAAGGTCAGCCTGGGCCATGGTGTGAGACCTGCAAAATAGAGCAATAATTAAAGTCTATCATGTCTCATAAATGTTACTCGAAAAGGTGTCAGGAAGTCAGGGAAGGCTGAAGATTGTAACAGTAGCAATCGTACAAGGAGAGGTTGTAGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTAAGATTGCTAGACATTCAAGTGAAGTGGGGAGGGGAGGGACGTGCAGATTCAGAAAAAGAACATTCCAGGGAGGTTAAGTCTGGGCAAAGGTGTAAGAAGTATGAATCATTGGTGGAGGAGGGAGAAACCACAGAGAAGCAGGGGAAGCTACTTCATGGAGCCGCCATAACAGGCTCGGGGTTGATGCCAAAGATGAGAAGCATCTGCAAGGACTTGCGTGTCAGAATTGCCAACACAGACTGAGCAGTCTCTCTGCCAGGCTCTATGTGATTACCTTCACTGACTAAGCATCAGTGTGCTCTCTTACTCTGAAGGGAAGTGCTTGCCTTGGTTTCCAGATGAGAACTGCCGGGTTCAGAGAGGTTTAGCAATTTGTCCCAGGTCACAGAGAAGCCAGAAGGAACCTATGTCGTAGGGACTCCAAGGCCACAGTTATTGACCCTGACTGAAACCCTGAACCTAGATGAGCTCCTAGATGAGGGGCGCAAGTGGATTGTGGGAATGTGGAGGACAAGGTGCCTGGGAGGGGAGCAAGGAAGCCTATGGACAGCACAGCAGGCAGAGAGCAGCGCCCATCCAGGCCCACTGGTCAGGTGGATTTTGGCAACGCTGAGTTTAGCATCACCCTGGGCTTTGTGGAAAAGATGGGGACCAAAGGGAAGAGGAGGAAATGGAGCTTATGACCCAGAGGACAAGCAGAGCTGGACACAGTGCTGGCCCAAGTTGGGTTCCTAGGAACTAACTGGTGTCTGTCTTGGGAGGGGAGACAGTCAACCATTGGAAAATGGAAGATGCAGGTCCTTGGAGCAAAGGGTATTGAAGTCATTGGCTAGAAGATATTAATAAACCTGAAGCCACAGGAGACTGGCAAGAATGTTGTCTCAGAGACTCTTGGGAAAGAGTATTAAGAACATAGGGCACTTAGCTGTTGTGGTTTGATTTGAGGTGACAGGGGTCGGGCTCTTAGAATGCTAGGTAGGAATGGAAATAATGAAGGTGGCAGGGATGACAAAGACACCAGAGTCCTATTTGGAGACTTTCTGGAACAATGGCATTAGTATTACTTGAAATAATTACTAGGAACTCCTAGGATTTAAATACCCATGTGCAGAAGCCAGAGGTCACTGTGTGACCAAGCTTTCCTAGTCAGTAGGGCTGGTGTGCCAGCATCTGTCTCTGGGGGTGTGGCAGAAAACACGCATTCCCTGATCAGTCCCTTGACCGGATACCCTCGTGCCACAG
Seq C2 exon
AGACCGATGAGTGCCGATTGAACCAGAACATCTGTGGCCATGGACAGTGTGTGCCTGGCCCCTCGGATTACTCCTGCCACTGCAACCCGGGCTACCGGTCACATCCACAGCACCGATATTGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020813:ENSRNOT00000028262:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGATCTCTCGCCCCTC
R:
ACACAATATCGGTGCTGTGGA
Band lengths:
223-2004
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]