DreINT0010831 @ danRer10
Intron Retention
Gene
ENSDARG00000057004 | FGL1
Description
fibrinogen-like 1 [Source:HGNC Symbol;Acc:HGNC:3695]
Coordinates
chr10:24719148-24719855:-
Coord C1 exon
chr10:24719627-24719855
Coord A exon
chr10:24719308-24719626
Coord C2 exon
chr10:24719148-24719307
Length
319 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
ATGGAATGTATGTCCATTAGACT
3' ss Score
1.39
Exon sequences
Seq C1 exon
GCAGGGGAAGAATGCCAAAGTTATGAAATGTCAAAGCTGAAGGAAGAGATTCGCATGCTGAATAATAAATTGTTGATAGGGGAATGGAAAGTTATGCATCTGCGTACTCATCGTAAATTCAGGCTGGTTCCCAATCTGGAATTACAGGAAAATAAGCCGTCTGAAAACAACACTGAACCTTCACCAACCTTACCAAGCACTGGAGGATCTTTATTAGTTCACGATAAAG
Seq A exon
GTAATGCGCCACATAAAAAAACCTATGCACATGTATATTTCTAATTAAACCATTCATTACTTTATGAAAAATGGGTATAAACTCTTTTTTTTTACATTTTAAAGAGCTTTGTTTTTAAATGTACATTATTTTCTGTCCTTCATAATGTTTGTAATTATTGTGGCTTTATTGAGGTTCTTGCATTTCAACAAAAATGGGATACAAATTAAACAAAAATTACATAACTGCTTTTTTTGTGATAATATGAAGGGTTGAAGATCAATAATAATAATTTTAAAAAAAAAGTCACATGGTTATTTATGGAATGTATGTCCATTAG
Seq C2 exon
ACTGTTCAGAGTTATATGACAGACTCAAACCAGTCAGTGGATTCTACAGGATCAAACCCAAACCATTACTCGAACCATTCCTTGTATACTGTGACATGGATGATGGGGGGGCCTGGACTGTGATTCAAAAAAGAATCAATGGGAAAGTTGATTTTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057004:ENSDART00000079566:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.247 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(1.3=3.9)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(23.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGGGAAGAATGCCAAAGT
R:
TTTGAATCACAGTCCAGGCCC
Band lengths:
358-677
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]