DreINT0069215 @ danRer10
Intron Retention
Gene
ENSDARG00000006526 | fn1b
Description
fibronectin 1b [Source:ZFIN;Acc:ZDB-GENE-030131-6545]
Coordinates
chr1:4838266-4838776:-
Coord C1 exon
chr1:4838594-4838776
Coord A exon
chr1:4838443-4838593
Coord C2 exon
chr1:4838266-4838442
Length
151 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
TTGACTGATTTGATTTTCAGTGC
3' ss Score
7.21
Exon sequences
Seq C1 exon
ACGGACAGTCCCAGGTATATGGTGGTAACTCTGGTGGGCAGCCATGTGTGTTCCCCTTTGTTTTTAGTGGAAACACCCACTACTCCTGCATCTCCGAGGGTCGATCTGATGGGCAGCTATGGTGCAGTACCACCTCTGATTATGACAGCGATGGCTTGTACTCATTCTGTACCCAGAAGAATC
Seq A exon
GTAAGTGCATCTCAGAGCCTCTTTTGACCAAGAAAATATCGTAACGGTATACCAAAATAAATCAGTTTCTTGGTCTTTTCGATAGGGTGTGAATTAGTGGATCAAGTGCTTACCATTTGTTTTTGTTTTTTTTGACTGATTTGATTTTCAG
Seq C2 exon
TGCTTGTGACAACCCGTGGAGGAAACTCGAACGGTGCTCTTTGCCAATTCCCCTTCAAGTATAATGGACGCAACTACACCGATTGCACAGCCGAGGGGCGTCGTGATGGCATGAAGTGGTGCGGTACCACTGCTGACTATGACAGAGAGCAGAAATACGGTTTCTGTCCCATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006526:ENSDART00000160791:7
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:
PF0004014=fn2=WD(100=67.7)
A:
NA
C2:
PF0004014=fn2=WD(100=70.0)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACTACTCCTGCATCTCCGA
R:
CATAGTCAGCAGTGGTACCGC
Band lengths:
248-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]