RnoINT0087563 @ rn6
Intron Retention
Gene
ENSRNOG00000020813 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:RGD Symbol;Acc:62057]
Coordinates
chr1:221099998-221103585:+
Coord C1 exon
chr1:221099998-221100498
Coord A exon
chr1:221100499-221103255
Coord C2 exon
chr1:221103256-221103585
Length
2757 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
GACCCCTGTCTCCTCCCTAGTGG
3' ss Score
8.43
Exon sequences
Seq C1 exon
CCCCTCAGTGCAGCTTCCATCGCTCTCCCTCGCAACCGAGATCCCGGCCGCTCCTGCTGTCCCCTCCCTGCCCTTGGCTTCTGGCCCCGCTCAGCCCTCTGCAGCCCTCTCCCGGGCTCCCAACACTCGATCCCCTGCTCGGGCTCCACCCCCGATCTCCGAGGGTCGTGCGGCCCCGGATGCCCGGGCCCCGAGGGGCTGCCCGCGGCCTGGCCCCTGCGATGCGCCAGGCGGGGGCATCGGGGCTGCTGGCGCTACTGCTGCTGGCGCTGCTGGGCCCCGGCGGCGGGGCGGAGGGGGGGCCGGCCGGCGAGCGGGGCACAGGCGGGGGCGGGGCGCTGGCCCGCGAACGCTTCAAGGTGGTCTTTGCGCCGGTGATCTGCAAGCGGACCTGTCTGAAGGGCCAGTGTCGGGACAGCTGTCAGCAGGGCTCCAATATGACGCTCATCGGAGAGAACGGCCACAGCACCGACACGCTCACCGGTTCTGGCTTCCGCGTGG
Seq A exon
GTGAGGGCCAGGGGCTCTGGCTGGGGACTTAGGGGAGGGCAGGCAATAGCACCAGGCAGGAAACAGAGTGGAACACTGGCATAAGAGATGGGAAGCTGGGATACAGCGATCGATCGCAGGGTCTTGAGAGGCTGCAGCCCTTGGAAAACAGAGTGAGGGGCTGTATGGAAGCTTGGACTTTTAAGTATTGGATAAGGGTTGAGGCTTAAGCTGGGGTCCCGGATGACACAGGATTCCTGAGAGGTGCTCAGTTCTAAGAGGGAGCATACAAGGGGTTGGACAGATGAGAGCAAGGGTAGGAAGTCGTGCAGAGCTGGGTAAATATGCCCCCCATACAGAATTCTTTTGAAACTGCCTCAAGTTTGGCCCGGTGGAAGAAGACACCTGTGTTCTCAGGAAGGCGGAGCTAGGGTCGAGACTGGAATGAAGGAGTTAGCTATTGGCAAAATCTGAGGGGGAAAGAAAGGCTTTGAGGCCTAAGAAGTAGGGTACTAAATAGTGGTACAGGCCTGCTGGTGGGGGTCATTTGGGTCCTCAATCAGCTAGTCTGTTCCCTACATCACTCATAAGTTCCAAACATCTGAAAGGCCCTCAGAGCTGCCCACACCCCAAGACTGAGGGCCTCCTGGTCAACCTAGAGCCCACCCCTTCCTTTAGCATCTCTCTAAAGAGAAGGCCTGGTGCTCAAGACTCCTCCCCTGGGGCCCTGTGGGCTAGGCAGGGGGAGGTGTCCCAGTGGTAATTACCCTCCTGGACAGGGTAATTAGGCCGTGCCCAGGATGGTACCAGGAAAACAGCCCCTCTCACACGTTCTCATGTTCACTCACAGCTCCAGACCCAAGGGCGCTCGATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTATACATGCACAGGCTTTGGCATGGCACGATGTGACTAGCTCGTGCTCTGTGTGTTTCGGGTGTGTGTCTACAGTCACTGTCTGGGAGTGTTTACACAGCGAGCCCATAGTATTTGTGTCAGAATGAGTGTGTATGTGTGACAGGATGACTGTGCATGTGAGTGTATGCATGCCCAGCCTCTCGGGCCCCCTGCCTGACCATCCTGTGCAGGCTCCTGTCTCTGTCCATGCTGCCCACATCCCCCAGGCTCTGTGCCCGGGCCACAGTGGGAGGATGTCACTGAGAGGTCATACTCTCACCACGATGGGTGACTCACTGGAAAGCAGGAAGAAGAGGATTCTGCCTCCTCTGGCCCAGGACACACCTCTGTTGCCCTTGAGGCCTGGTCTCCAGAGACTAGACAGGATAGGATAGGCTAGTCTGGGATGCTCTTCCCACCCTCATGATCAGAAATGGGTCAGGGCTGCCCCTGTGAGTGTCCAGGGAAATAGCACAGCCACCTACCCTCCCGAGAAAGTGGAGTGTCCTTAGAACAAGCAAGAGAGGAGCTGTGGTTGGAACTCAGGGACCTCCTTTGGGACACAGAGCTGAGGACCACCACACTGTGCCCTGGAAAATGCCCTTTATATTGGGAGAAGCAAATATGACTACAACTCTGGAAAGTGCCAGCCAAGCCGGGCAGAGGGTGGGGAATGGGAAAACCTCCTTTCTGGGAGAGACACTGGACCCTAAATGGCCAGATCTGGACCATGAAGCAACTAGCAAGAACTAAAGGAACGGATAGAGGTACAGCCAACGGATGGAGACGCTGGCACACTGGTAGGAGGTAGCTAGGTCCTGCGCCAGGGGTGTGCAGGAGACAAACAGAGGGAGTTGGAGTAAAAGAAGGTTCTGGAACATGGCCTCAAATGTTCAGACAGGGAGCAGAGCAGTAAGATGAGGGAAGGGGTAGGGTTGTTTTTTTTTTTTTTTTTTTTTTTTTCTAGAACTTTGCCTGAGGCAGGTTTCTCTAGTCATGATGGGACTGTGGACAGTTGGGCAGAGGTCCTGAGTGAGACCGGAGATGGGTTTAAGGGACACTGTAGAGACTGCAATTATATGCTAGGGTCGGTCACCTGTGGCTGAACAGCCAAGAATTCCCAGGGGTAAGCCCAGGCAGATAGAAGTCCTGAGTTCTGTCAGTGTCCTGGGCTAGACCCTGGTTTGGTTAGACATGGTGTGCCATTGGCAGCTGCATGAACTAGGGTTGATGGCAAGATGAAGGTTGAATATGAGGATGGGCTAGGGGAGAAACTTGAGGCCTGAACTAAGGGGAGAGCATTAGTTGTTGCTTCTGTACACTCTGTTCCACACTGGGGTAAGCATCTGTATAGACATTGCCTGCTCCAGGCAACGTTACCAGCATAGAGGAGGCCCAGGTGCCTGAGAAGGGGAAGTAAATTCTCAGAGACATAAGGGCATATGGCCAGGAGTTAAGCCTGGAATTTAAGATTCCACAATCCGTCGTGGAGAGAAAGGTTTTGGGGACCTACAGAAGGCCATTCATGCCTACCTATTAACTGATTGGTTCTTTAGATGTCAGCATTTTTAGTTCTCTGTAAACTCCAAATATTAACCTTATCATGGAAAATAGCTGTCAAAGGCTGTCTGTCTCCCACCTCCTGGGCTCTCTTCTGTTATTTTTCTTTTGCTTTTCAGGGTCATGTGTGTGACCTATTATCAAAGTCAGGTTCCCCATAGGGCAGAGCTAGGGTGGCAAGGAAGCCTGAATAGTGAGTCAGGTCGTGGGTGATGATGGCCTGAAGAGAAACCAGGCTCTGACCCCTGTCTCCTCCCTAG
Seq C2 exon
TGGTGTGCCCTCTACCCTGCATGAACGGTGGCCAGTGCTCCTCCCGAAACCAGTGCCTGTGTCCCCCGGATTTCACGGGGCGCTTCTGCCAGGTGCCTGCCGCAGGAACTGGAGCCGGCACCGGCAGTTCAGGCCCCGGACTGGCCCGGACCGGAGCCATGTCCACAGGCCCGCTGCCGCCCCTTGTCCCAGAAGGAGAGTCTGTGGCTAGCAAACACGCCATTTATGCGGTGCAGGTGATCGCAGATCCTCCCGGGCCGGGGGAGGGTCCTCCTGCACAACATGCAGCCTTCTTGGTGCCCCTGGGGCCAGGACAAATCTCAGCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020813:ENSRNOT00000028262:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.315 A=NA C2=0.595
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=24.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]