DreINT0091470 @ danRer10
Intron Retention
Gene
ENSDARG00000035682 | ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:ZFIN;Acc:ZDB-GENE-060526-130]
Coordinates
chr5:36917524-36918302:+
Coord C1 exon
chr5:36917524-36917731
Coord A exon
chr5:36917732-36917805
Coord C2 exon
chr5:36917806-36918302
Length
74 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
TCTGTGTTTTTTATCCACAGAAC
3' ss Score
11.78
Exon sequences
Seq C1 exon
CTCCCTCCTGTGCTGCTCTGGCTCTCAGCCAGCTCGGCTGCCCGTGGATTGGCTCCTGCTATGCCTCTCCTCCTCCTAAACTTTCCCAAACTGCGATACGCGCACACACGCCATCCACGCAGCGACCGAAAGCAAAGAGGAGGACGAGGCTTTTAGGGATTGAGGAGTTTTCCACCTTATTCCGCTGCCAGTCTGTCATTCAAAACAT
Seq A exon
GTAAGAATTTCAAAAGCCTTGTAAAAATGTGCCAAACGGCCTCGACGCGGATAATCTGTGTTTTTTATCCACAG
Seq C2 exon
AACCGGACGTAAATTTTCAGGTTTCTAACTTGAAAAGTCACAGGAAGGCATCAGGAAAAAGTTTCTGCGCGAGGACTTTCATAGCCAGCTCTGCCTGGGAAAAGAGCGCGTGCTTGCGTACATTTTCCAAACTGGGCTCCAGCAAAACGTCTTCAGCGGTCGTGCCTGGAGGAACTGCCTGATCCGCACAGGCTTTACGTGGATATACTGTGGGTGGTAGCGTGAATGACCTGTGTTGGCATTGAGGGATGCCAGCATGCCCTCGCTGATTGTCTCGCATCTGCTCCTCATCTGGCTCGCGCTCCCGCGGCTGGCTCTGTGCGGCGAGCGCGCGTCAACCCGCGAGCGTTTCAAAGTGGTCATCGCGCCGCTCATCTGCAAACGGACATGCCTGAAGGGTCAGTGTCAGGACACCTGCGAGCAGGGCAACAACACCACTCTCATCGGTGAAAACGGACAGTCGGCGGACACACTGACCGGGCCTGGCTTCAGAGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035682:ENSDART00000048107:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.037
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGACGAGGCTTTTAGGGA
R:
CTCTTTTCCCAGGCAGAGCTG
Band lengths:
176-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]