GgaINT0046547 @ galGal4
Intron Retention
Gene
ENSGALG00000003578 | fn1
Description
fibronectin precursor [Source:RefSeq peptide;Acc:NP_001185641]
Coordinates
chr7:4339212-4340228:-
Coord C1 exon
chr7:4340139-4340228
Coord A exon
chr7:4339312-4340138
Coord C2 exon
chr7:4339212-4339311
Length
827 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCTAACCTTTCTTTGGCTAGATG
3' ss Score
7.6
Exon sequences
Seq C1 exon
GCTTAGAACCAGGGACCGAATACACAATCTACATCATTGCTGTGAAGAACAATCAAAAGAGTGAACCACTGGTTGGCCGAAAAAGGACAG
Seq A exon
GTAAAACAAAGCTGTGGATTGTTGAGTGCTAACAGGACATGTTTTCATCTTGGGGAATACCCTCTCAAGACTGAAATAATGATAGTATGTAAAATACTCTGCTCACACCTTTCAGTCTTTCTTTTTGAGTCAAATAGGCTTTGTAAGGAGGATTTTCTTCCTAGGGTGCAAGAGGTAGGATTTCTAAGTTACCTGAATGACACTTAACTGTGTTTGAACGCTAAGAATGGAACAACATGCTTGGTGTTGGATTCTTGCCGGGGTACCTGATTGATAATTAAGGTTAATGCTCATATTTCCTTCTAATTTATCCTGCCATCAAAGGCAGAACCAATTAATTCATTGCCTATCGCATTTCTCTTGCACCAACTCCTCCACTGTGTGAGATGGAGACCTGCAGCAAAGCAAAATACTAGCTGGACATCTAAATGTGATCTCAGGCCTAGTTTCTTATTGCATCCGAGTGGTTATCTTAACATTATAACAACAGAATCTCTCTTCTAATTACATATTCTCAATTTGAGCATTGGTAGCTTCCATGGGATGCGGTGTTTAAAACTACTGCTCAGCTATATGAAAAATTCATACCAACACACTTCTTATGTCTATGTATGAAATAAATATATTTATATAATATATAAATACATAGAGATTGATAAATCGGTACATTCATAACAGTCAGAATGAGATCATAAAAAGTGTGTTGCATCTTGGGACAATTGCTAATCTTTGCCTGGATCAGTATGCAGCATCCACTCTAGTTGCTGAATTTGCCACTGTTAATTTGCCACGCTTTGCTTTATGGCTTCTAACCTTTCTTTGGCTAG
Seq C2 exon
ATGATCTGCCCACGTTGATTACTGGACCGCACCCCAACCAGCCCGACATGCTCGACGTACCTTCTGTTGATGAGGGAACCCCTTACCTCACAAACAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578:ENSGALT00000005663:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.435 A=NA C2=0.876
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTAGAACCAGGGACCGAAT
R:
CTATTGTTTGTGAGGTAAGGGGT
Band lengths:
190-1017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]