DreINT0069214 @ danRer10
Intron Retention
Gene
ENSDARG00000006526 | fn1b
Description
fibronectin 1b [Source:ZFIN;Acc:ZDB-GENE-030131-6545]
Coordinates
chr1:4838594-4839128:-
Coord C1 exon
chr1:4838931-4839128
Coord A exon
chr1:4838777-4838930
Coord C2 exon
chr1:4838594-4838776
Length
154 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACA
5' ss Score
5.19
3' ss Seq
ATCTCTTTAAATTTTCACAGACG
3' ss Score
7.77
Exon sequences
Seq C1 exon
GTACTGGATCTGCAGTGACTCACAGAGTTACACCAGTGATGAACCAAGTCAACGTCCTGAATGAACTTATCGAAGAGGGCAACTGCAAGACCGATTCTGGGGTGTCCTATTACAATGGCATGAGCTGGATCAGAACTCAGGGCACCAAGGAGATGCTGTGCACTTGTGTTGGAGGAGGAATCAGCTGCGAGGAGCAAG
Seq A exon
GTGACATTATTACTTATTCCTTGGGAGTCAAACCCATGACCTTCATTTAATAATTGTTATGCTCTACCGTTTAAGCAGGTGGCAGGTCATGAAACCCCTCCATTTTCGATGATTAAAACACTGTGGTGCCATTAATCTCTTTAAATTTTCACAG
Seq C2 exon
ACGGACAGTCCCAGGTATATGGTGGTAACTCTGGTGGGCAGCCATGTGTGTTCCCCTTTGTTTTTAGTGGAAACACCCACTACTCCTGCATCTCCGAGGGTCGATCTGATGGGCAGCTATGGTGCAGTACCACCTCTGATTATGACAGCGATGGCTTGTACTCATTCTGTACCCAGAAGAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006526:ENSDART00000160791:6
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:
PF0003913=fn1=WD(100=52.2)
A:
NA
C2:
PF0004014=fn2=WD(100=67.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGAAGAGGGCAACTGCAAG
R:
CCATAGCTGCCCATCAGATCG
Band lengths:
252-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]