RnoINT0061806 @ rn6
Intron Retention
Gene
ENSRNOG00000014288 | Fn1
Description
fibronectin 1 [Source:RGD Symbol;Acc:2624]
Coordinates
chr9:78900113-78901531:-
Coord C1 exon
chr9:78901418-78901531
Coord A exon
chr9:78900873-78901417
Coord C2 exon
chr9:78900113-78900872
Length
545 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTTTCTTCTATTTTGACAGAAT
3' ss Score
8.72
Exon sequences
Seq C1 exon
GGCTGGCGCTGTGACAACTGCCGCAGACCTGGGGCTGCTGAACCCAGTCCCGATGGTACCACTGGCCACACCTACAACCAGTATACACAGAGATACCATCAGAGAACGAACACT
Seq A exon
GTAAGTGTACACACATTTCCCCCAGTGCCTCACCCTGCATGCAGTCAGGGGTGGAGTATGGAGTCAGTGGATAGATGCTTTTCTTGAGTGAACCAAATGAGTTTCCTTTGGAAAGAAGTTTTTTGTTCCTGAGTTCAGTCCTCAGAACTCATGTAAAAGAGCTGGGCACTGTGGCAAGAGCTTATAATAATCTCTTATAATCTCCTCACTGAACAGGCAGAAGTTGGGTGTAGGGGGTGTCCCTGGGGCTATCTGGCCAACCATTGTAGCCTCATTAATGAGCTTCAGGCATGAACAAGGTAGACAGGATCTGCATGATTAAAGTTAACTACTGGCCCCTTACACACAAAGTCTTATGAATTAATTATAACTTGTTATAATTTACAAAATTCCTAAGCATTATCTATTGCTCAGTACATTGCTAGTCTTTTGAAACTAGATAGTTATCCTTTCTATAAAACACCGATGACACATCTCCCCACCCCCACCCCCCACACTTGTTTTTCGGAGTATCTGCTACTAATGTTTTTCTTCTATTTTGACAG
Seq C2 exon
AATGTAAATTGCCCAATTGAATGCTTCATGCCGTTGGACGTGCAGGCTGACAGAGATGATTCCAGAGAGTAATCTTTCCATCCAGCCCAAGCCAACAAGTGTCTCTCTACCAAGGTCAATCCACACCCCAGTGATGTTAGCAGACCCTCCATTTCTGAGTGGTCATTTCACCCTTAAGCCTTCTGCTCTGGAGTCAAGTTCTCAGCTTCAGCTCAACTTACAGCTTCTCCAAGCATCGCCCCGCGGGATGTTTTGAGACTTCCCTCTTAAATGGTGACAGTTGGTTGCCCTGTTCTGCTTCAGGGTATTCAGTACTGCTCAGTATTATTGTCTAAGAGAATCAAAAGTTCTTGTGATTTGGTCTGGGATCAAAGGGAAACACAGGTAGCCAACCACGATGCAATGAATTGAATGGTAGTACCCAAGAGCGGGAGCAGGAAGTTAAACCAGACAGTTCTGCTTTCTTTTGCCGTCTGATCTGCAGCACTGTCAGGAGGCCTGTCCTGTGGCTGTGTCCAAACACCCCACAGGACTCACTGTCCCAACAATCCTAATTGCCTAGAAATATCTTTCTCTTACCTGTTATTTATCAATTTTTCCCAGTATTTTTATACGGAAAAAATTGTATTGAAGACACTTTGTATGCAGTTGATAAGAGGAATTCAGTATAATTATGGTTGGTGACTATTTTTATATGTACATGCCAACACTTTACTACTGTGGAAAGACAAGTGTTTTAATAAAAAGATTTACATTCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014288:ENSRNOT00000019772:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.217
Domain overlap (PFAM):
C1:
PF0003913=fn1=PD(8.3=7.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCACACCTACAACCAGTA
R:
CTGAAGCAGAACAGGGCAACC
Band lengths:
355-900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]