RnoINT0087548 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108504888-108506247:-
Coord C1 exon
chr6:108506104-108506247
Coord A exon
chr6:108505080-108506103
Coord C2 exon
chr6:108504888-108505079
Length
1024 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GGGACTTCCGTCACACACAGCTC
3' ss Score
4.55
Exon sequences
Seq C1 exon
ATGTGAACGAGTGTGAGCTCATGCTGGCAGTGTGTGGGGATGCACTCTGCGAGAACGTGGAAGGCTCCTTCCTGTGCCTTTGTGCCAGTGACCTTGAGGAGTATGATGCAGAAGAAGGACACTGCCGTCCTCGGGTGGCTGGAG
Seq A exon
GTGAGACCTGGGAGGCCCCTTCCCTTCCTGCCTCTTTCCATAAGGACTCCTGGCTTAGAAAAGTCATCCATTCATCTAGCTCCTGCCACTTAGTGGAGTTCAGCAGGCCGGGGTTGGAGGTGTGGGTTAGGTGTACATGAGAGAGGGGACAGGAGTCTAAGGGCCACACCTGCCAGCACGTGCCAGACAGCGTTCCCATTGAACAGCTAGGATGGCCTAAGGAAGTTCACGGTGCTCTGGCACCTAGAATATCTGCCCAGGGAACCTCAGGTTGAGTTTGGTAGAGACCCTGAGTCCACCAAATCCTTGAATGAAGCTTTTGGATTAAGGAGGCCTTGAAGTTGAACTAAGCTGGACCCTTCTTTTCTCACTGCCACTCTACCCAAGGCTAGACCAGAACTCAGCTGACTTCAGTGACTTGGAAAAAAGCAAGGGGAACTCTGTAAGGAAAAATGGAGGGAGAAGGGTTTGGGGTCCCTAAGAAGCAAAAGGGATGTTCATATGGTGTGCCATAGATGGGGATTACCCATGGGGGTGGATGGCAAGTAGTACATTAGAAACACCGGGGGGGGGGGGCTGGAGAGATGGCTCAGTGGTTAAGACCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTCATGGGATCCAATGCCCTCTTCTGGTGTCTGAAGACAGTGACAATGTACCCACATACATTAAATAAATTAAAAAAAAAAAGAAGAAGAAGAAGGAAACATCAGGGGCTTAGGCATCAGAGGCACTGGCATCAGAGTCCCATTTCACCCCTTAATACCTCCTTAAATGTAACTCCTGAGATGCAATGTCTTTGTGATAGGGGAATGACAACAGTAGCCACTCCTAGGGATGCCAAGGGTGCCACACGAGATACTGTACACCATAAGTTCTATATAGACACTAAGTTTAAAAGATCAACTTGAGGGCAGGGATGCCTCAAAGGGTAATGAACAGACTCTAATAGGGACTTCCGTCACACACAG
Seq C2 exon
CTCAGAGAATCCCAGAGGTCCCAACAGAGGAGCAGGCTGCAGGCCTTACCGGCATGGAGTGCTATGCTGAACACAATGGTGGTCCTCCATGCTCTCAAATCTTGGGCCAGAACTCCACACAGGCTGAGTGCTGCTGCACCCAGGGTGCCAGATGGGGGGAAACCTGTGATCCCTGCCCATCTGAGGACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:27
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=0.092
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=85.7)
A:
NA
C2:
PF0068312=TB=PU(85.4=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAACGAGTGTGAGCTCATG
R:
TGAGTCCTCAGATGGGCAGG
Band lengths:
334-1358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]