RnoINT0087589 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84148019-84150084:-
Coord C1 exon
chr1:84149942-84150084
Coord A exon
chr1:84148078-84149941
Coord C2 exon
chr1:84148019-84148077
Length
1864 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
GTTCTCCCCTCCTGTTACAGTGC
3' ss Score
9.8
Exon sequences
Seq C1 exon
ATGCGCCGGCCTGGCCTCGGCTGCCACTGCCCCCTCCTCCTCCTGCTGCTGCTCCCAGCCGCCACATCTGCTAGCGGCCCCAGTTCCAGTCCCAGCCCTATCCAGGCCGTCGAGGACGCGGTGGTCCCGGGCCACCAGGCCGG
Seq A exon
GTAAGCCCACTGCAGCCTCTTCTTCCTCGTGCTGCACCCAGTAAGTCTGGTGGTCCGGCAGGAGCAAGACCTTCAGGTTTAGGAGACTACAAAGCAACTGCTCTTGGTAGGAGGATGAGGCCAAAGCTCTTGGAGCTACTAGGAGCCCCTACTTTGCAGTCGTTAGAATTCGAGGTGCGCTGAGAAAGTGAAGCGGAGGTCCTTTCAGGGTGGTGGTACGGATGGATAGGCTCCAGCCAACCCCCGAATTTATTGGGGGAAGAGATACCGGGTAAGACTTCGAGTTTTCTTAGAATAACAGATGGGTGGGGCCCTTGAACTAGCCTCCAGCTCCCTAGGTTTCTTGAGTATTTTTTAAAAAGGTGCCGGAAGGCCGTGCGTGGTAAGATCTTAAAGAAAAGTTGCCGTGTTCTGGGTTTCTAGGGGCGCTGGATTGATTGGAAAAGACTTCTGGGTTCTTCTAATAGATTAGGAAGACGCAAATAGGTTCCTGGAAAAGGGATGGGGGGAAACCTGTGCAGGGAGATCCTCGGGTTTTTTGATGCTTCTAAGTTTTCTGAGATCAGAGCTCATCAGAATTGAATGAATTACCAGTGATTTGGTGGTAAGATCCAGGATAGTTTATAAATTTCCGTGTTTATAGGCCCCTATCTCGTCTGCGGATGACAGGATGAGTGGAGATGATCTGCCTAGCACCCCAGCCCTGCTCCTGGCAGCTCTGCGCTCCGTTACAAAGGCCGTGGGCTCCGCTCCCGCTCCCCGCCTGGGTCTCTGGGAATGCGTTTAGTAACCCGAGCCGCGCCGGGGGCGGGGCTGGGAAGGGGTTAACCTGGAGGAAAAGCGGGAGGGATGAGGACAGGATTCGAGGGTCTCGGAGGCTTCCCCGGGGCAGCCTGCGCCCCCTCTATGCCTCACTCATCTAGAATGGATTCGGGCATTAGATTTCCTTTCTCGGCAACGTCTAAAATTTTTCTCTCTGGGCCTGGACGTGCACCATCATCCCTCACCCCCCTTTAATTTGGGGATAATGGACTTGTCTGGGGGGCCCCAGGGTTTCGACGCTCTGGCAGTACCGCTGAAGGGTCGCCGCTGAGACCCTGTGGCGCGGAGACATATCCGGAAAAGACCCTTTCCTCTCTGACATTGAAGTTCAAGGACCAGGAGACACTGGTCCGAGAACGTACATCCTAGAAAGGCGGGAATTGGATAGAAGTCAAGCCTCAGGATTCCCAATCCTGGACTTCGGTATCCCTACCACCTCAGCACTGTGCTGGACCCGAAGTCTAAGGCGACACCGCAGTGCACAGCCGCCGAGGTCTGTGTATGTGGCGCCACCTACCGGCCACTTTTAGGATAGCGTGTGAGCCCCAACTCTCGTCGAATTAGTGGGCGGAGTTCTAGATCCTAGACAGTCCTGGCTTGTAGGTTCACTTAGACCTCTCCTTTGAAAGTTTCTTGAAATGATTTTAAGCCTGGCGTGGTGGCTTACGTATGTAACTTTAGCTTTAGAGGAGAATGAAGCAAGGAGAATTGTCCGGAGTCTGAGGGCTGCCTGGGCTACACAGTACAGTGTAGAGCAGCCATGCTTGACCTCGTCTCAGAATGAGTTTGAGGCCAACCAGAGCTACAGAATGAGAATCTGTCGATGGTGATGGTGATAGCAATTTCATAAGTTATGAAAGATAAGCCTTTACTCCTGAGAGTCTAAGCCAGTCTGCCTCCTCTAGTTGCACAGGCATGCCTCAGGTGAAGTTATCTACCTGCTTGAAATTCCCTTGAGTCTTGGTTTCTCCTCTGTTCTCCAGCCCGCCCCCCTCCTTTGGGGGAGTTCTGAGACCTGAACAGTTCTCCCCTCCTGTTACAG
Seq C2 exon
TGCTGCTGCCTGTCGTTGCTGCTTAGCCCAGACACCTAGGAGTAGCCACTGCACCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.354 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]