DreINT0069208 @ danRer10
Intron Retention
Gene
ENSDARG00000006526 | fn1b
Description
fibronectin 1b [Source:ZFIN;Acc:ZDB-GENE-030131-6545]
Coordinates
chr1:4811283-4811665:-
Coord C1 exon
chr1:4811527-4811665
Coord A exon
chr1:4811445-4811526
Coord C2 exon
chr1:4811283-4811444
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTTCCCTTCAACCCAACAGTTC
3' ss Score
5.67
Exon sequences
Seq C1 exon
ATGCGTGTCCCAGGAACATCCACAACTGCCACTCTTATTGGTCTCACCTCTGGTGCGTCCTATAATGTCATTGTGGAGGCCTTGAAAGGAGCCCTCAAGCACAAAATCCTAGAGGAAGTCGTCACTGCTGGAAATACAG
Seq A exon
GTAAAAAAGGAAATTCAAGCTTTGATGAAAGCTTAATATGCATACATATCTGATGCCGACATTGTTCCCTTCAACCCAACAG
Seq C2 exon
TTCCAGGAGATGCTACATCCAGCAAGGACTCGTGTTATGACACTTTCACGGCCACTCACCACGATGTCGGAGCGGAATGGGAGCGCATGTCTGATACAGGCTTTAAACTCTGGTGTAGATGTCTTGGATTGGGAAGTGGACATTTCAGATGTGACTCTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006526:ENSDART00000160791:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(43.0=72.3)
A:
NA
C2:
PF0003913=fn1=WD(100=72.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCCACAACTGCCACTCTT
R:
GAGTGGCCGTGAAAGTGTCAT
Band lengths:
181-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]