GgaINT0046547 @ galGal3
Intron Retention
Gene
ENSGALG00000003578 | FN1
Description
NA
Coordinates
chr7:4367250-4368633:-
Coord C1 exon
chr7:4368544-4368633
Coord A exon
chr7:4367717-4368543
Coord C2 exon
chr7:4367250-4367716
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
ATGATCTGCCCACGTTGATTACTGGACCGCACCCCAACCAGCCCGACATGCTCGACGTACCTTCTGTTGATGAGGGAACCCCTTACCTCACAAACAATAGGTATGACAATGGAAACGGTATCCAACTTCCAGGCACTTCAGGGCACCCACAGACAATAGGACACCAAGGTCAGCAAGTCTTCTTCGAGGAGCATGGCTACAGGAGGCCTGTACCCACGACAGCAACTCCCCTTAGGCCTGGGTCGAGACGGCAGCCACCAAATGTAGATGAAGCAATTGAAATCCCAGGGTACCAAGTGCCAATCATAGTTGTACCTTCATACCCCCACTCCCGTGAGCCCAGACGCAACGACACCACGGGCCAAGAAGCTCTTTCTCAGACAACCATCTCCTGGAGGCCTTTGCTGGAGAGCACTGAGTACATCATCTCATGCCAACCAGTCAGCCAGGATGAAGATACTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578:ENSGALT00000005664:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.419 A=NA C2=0.795
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
PF0004116=fn3=PU(53.8=26.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGGTTGGCCGAAAAAGGA
R:
GGGAGTGGGGGTATGAAGGTA
Band lengths:
357-1184
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]