DreINT0070442 @ danRer10
Intron Retention
Gene
ENSDARG00000071238 | ftr58
Description
finTRIM family, member 58 [Source:ZFIN;Acc:ZDB-GENE-080219-44]
Coordinates
chr23:6927053-6927451:-
Coord C1 exon
chr23:6927356-6927451
Coord A exon
chr23:6927287-6927355
Coord C2 exon
chr23:6927053-6927286
Length
69 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
GATTGTGATGTGTTTAACAGCGC
3' ss Score
7.21
Exon sequences
Seq C1 exon
AAAGAGCTGAAGGAGATGCAGATGAAGCTCCAACAGAGGGTCCTGCAGAGACACAAAGATCTTCAGCAGCTGAGAGGGGCTGTGGAGACTCAGAAG
Seq A exon
GTTAGTCTGGAGAAGAAGTTTAAGTCTCACTGTGTGTCACAGGCTGTGTGATTGTGATGTGTTTAACAG
Seq C2 exon
CGCTCTGCACAGACAGCAGTGGAGGAAACTGAGAAGATCTTTATTGAGATCATCCGCTACATTGAGAGACAATGCTCTGAGCTCAAGCAGATGATCAGAGATCAGCAAAAGACTGCTGTAAGGGATGCTGAAGGGCTCATAGAGCGACTGGAGCAGGAGATTAATGATCTGAGGAGGAGAGATGCTGAGCTGGAGCAGCTTTCACAGACACAGGATGACATGCATTTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071238:ENSDART00000056426:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.128
Domain overlap (PFAM):
C1:
PF129202=TcdA_TcdB_pore=FE(31.3=100)
A:
NA
C2:
PF129202=TcdA_TcdB_pore=PD(52.5=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ATCTTCAGCAGCTGAGAGGGG
R:
TGAGCCCTTCAGCATCCCTTA
Band lengths:
177-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]