RnoINT0087535 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108525281-108527304:-
Coord C1 exon
chr6:108527191-108527304
Coord A exon
chr6:108525410-108527190
Coord C2 exon
chr6:108525281-108525409
Length
1781 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
TACTTGTTACATCTCCACAGGCT
3' ss Score
8.1
Exon sequences
Seq C1 exon
GGGATGCCACTGGAAGACCAACGCCATCATTGCCTGGACAGGGCATTCCAGAGGGTCCAGCAGAAGAGCAGGTGATCCCTTCCAGTGATGTCCTGGTGACGCACGGTCCCCCAG
Seq A exon
GTAGCTGCAGCAGCCCTTGGAAGCTCTTTGCTCTCGCTTCTGGGGGATGGGGTTGCCCAGAACCAAAGTCCAGGGCAGTCTGTGAGTGGGATTTCGCTCTTGCTTCCTGAGCCAGATAAACAGTCTCCAGCAACTCTGACCTAGCTGTGGTTCTCGCTTGCTCTTACAGAGCGGCACAAAGCCTACCTAGTAAAGGCAGGGGCCCTGCCCTTGTGGGGAATGGTCCTACTCAGAGGACTCCAGGGAAAGCCATGGAGCATCTTAGGGAGAGGGGAGACTTCTTGAAGAATGGGGAGTTCATAGAGTAGGAGTTGAGGTGAGAGGGGGGCTGAATCAGTGAGGACCCCGGCAGTGGCAGCCATCTGCCCACTGGAAGAGTGTTTTGGGGGGAAGAGACAGAGTTATATTGCACAAGGTTGTTTAAATGTCCAGAGCTGGTATCGGACTCCCTCTCATCAGCCATAGTGATGAGGGGCGGCGGTGTCGGGGAGGTCGCTGGCAAACCCACCTGGCTGTGGAATGTGCCTTCCACAAAGGCTCATTGTCTGAGGACTTGGTTCAGGAGAAGCAAGGCTACCGTTTTACAGCATTGTCGCCATTGCTCTCTGTGCCCTCTTGCCTGCCCTCTCTCGGGGCTAGCTGTGCTCTGAGCTAGAGGGTCACCTTGAGTAGGAGTCCGAGGGCGGCTAGAGTTCTCTGGACTTCCGCCAGTGAGAGGAGAAAGCCTGCAGCCTGCTGCAGGTGGGATGAGGGCATGGCTCTCCTGAGAGTTCTCCACTGACCTTTCCCAGCATTCGGAGTAAGTCCTCTGAGACACCAGGGATCATCCCCTTCCAAGTAGGCAGGAAGAGCTGAGTATGTGCTGAGACTGACAGGGGCCAAGGTACAGTGAGGCCAGGCTGCCCCACCCCCTGCAGTGGCCCTCAGCTGTGCAGCTGACAGGGCTACCAGCAGCAGCATCAGTCTTTTGTCTGATCCAGATTCTGCCCTGCTATCTTTCAGCCTCACCGAATGGACATTTGAAATCTGGCTGGGAGCTGCTAGTTCAAACTTGGAATCAGGCTGGGGAGAAGGTGACCTTGTACACAGGCCACTGGGGCATCCAATTCAGTGCAGATTAGCAATGCCGTAAAGCCCCTCTGTTTACCAACCTGGGCTACTTCTGACCTACTCTGTTGATGCTTTTGGATTCTCTCAGAGTGGTGGAGCAGGGAAGGGAGCCCTAGGTATATGCTCATAGACTGACACAACAGAGTGGACCCAGATGAAAGCAGTGTTCTCTTATTGGTTTATTGGTTCACTCACTCACACATTCATTGACTCACTTATAAGTGTTAATATTTCCCTAATATTAGAGGTATAAGACAATAAGCCAGTTTCTTCAATCTGTGTAACCTAGTCACTAGATCTGTCTGCTAGTCTATGGGAAGATGGGCAAGAGTTTCCAGGGGTGGGTGGCGTTGGTTCTTTGGGTAAGAGCTGTGCCCACATTTAGGTTGAGGGTGAGGGTAAGGAGGTCATTTGTAGGGAATATGGGTTACTAGAAGCCATCTGGTCTCTGTTAGGAGGATGTACTCAAACGGGCTCAGGGACCAGGCATGGGTCTCATAAGTCTTATGAGGCCATTTTATCTGTTGGCATGAGAGGGCTGCCTAAGGGTTAGTGGGCTTCTAGTGGGCTTCTGAGGCCAGTGAACCTAACCCTGCTATCTCTTCACCCTCCTCCACTGCCTTCGTGCATGCTCTACTCTGCCATAACCTCTACTTGTTACATCTCCACAG
Seq C2 exon
GCTTTGATCCATGTTTCGCTGGAGCCTCCAACATCTGTGGCCCTGGGACCTGTGTGAAGCTCCCAAATGGATACAGATGTGTCTGCAGCCCTGGTTACCAGCTACACCCCAGCCAGGACTACTGTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.821 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126622=cEGF=PU(83.3=45.5)
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:
GGATGCCACTGGAAGACCAAC
R:
AGTACAGTAGTCCTGGCTGGG
Band lengths:
241-2022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]