DreINT0091476 @ danRer10
Intron Retention
Gene
ENSDARG00000035682 | ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:ZFIN;Acc:ZDB-GENE-060526-130]
Coordinates
chr5:36964968-36965320:+
Coord C1 exon
chr5:36964968-36965096
Coord A exon
chr5:36965097-36965191
Coord C2 exon
chr5:36965192-36965320
Length
95 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTTTTTGTGCATGTTTTCAGATA
3' ss Score
9.54
Exon sequences
Seq C1 exon
ATGAGAATGAATGTGATGCACAGCCATGTGGTAGAGGTGTTTGCTTAAACGTTTTGGGTTCCTATAAATGCAACTGTCATCATGGCTACAGACTGAGCGAGATTTCTTCAGGAAAGCGCAGTTGTTCTG
Seq A exon
GTGAGTAACCAACATTATCTGTTCAAAGGCAGTGGACATCTACTAAATATATGGCAATATAAATGACCAACACTTTTTTTTGTGCATGTTTTCAG
Seq C2 exon
ATATAAATGAGTGCTTAAACACAGAAATCTGTGGAGTAGGAGGGCAGTGCATTAATCAGCAAGGTTCCTATAAGTGTGAATGTCTCCCAGGCTTCCGAAAAAAAATCCAGAAACCACCACATTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035682:ENSDART00000048107:15
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=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCCATGTGGTAGAGGTGT
R:
TGCTGATTAATGCACTGCCCT
Band lengths:
171-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]