GgaINT0125438 @ galGal3
Intron Retention
Gene
ENSGALG00000003534 | F1NM06_CHICK
Description
NA
Coordinates
chr17:7265765-7266370:-
Coord C1 exon
chr17:7266251-7266370
Coord A exon
chr17:7265872-7266250
Coord C2 exon
chr17:7265765-7265871
Length
379 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
CATTTCTGTTGCTTTTGTAGGAT
3' ss Score
10.59
Exon sequences
Seq C1 exon
ATTACGGAAGGGGATAAATATCCTTATTTCAACTCCTGGTCGCCTGGTTGATCACATCAAGTCCACGGAATGTATTCATTTCCGTCGCACTCAGTGGCTGATCATTGATGAAGCAGACAG
Seq A exon
GTAAACTTACAGATGTTTAGGTACAAGCAAGAATGAAAATACCCCCTGCATTTACATGGATAATGCGTTTAAAAAAATAATGAAAATCTTCAAACCATTTGTGCTCAGTGACCTCAGAAAAGCAGCAGATGTCTGGGATTAGGAAGAAATGTCCCGTTTGGACAGATTATTCTACAGTTATTCAACTACAGAGATTCTCTCAGTGTCTTTCTGACTTATCTGATTCTGGCAAAACCTGAAGATGAGACATAAAGCTAGATGGGCCAAAGATCTGATCAGCTCTAGAACTTCAGCTATCTTTAATTGGATTATGTAGGCTTAAGACTTTCTTCTCATTCCTTCCTTACAGTGCCTTTTGTCATTTCTGTTGCTTTTGTAG
Seq C2 exon
GATCCTAGACCTGGGCTTTGAGAAGGATGTAACTGTGATACTTAATGCTTTAAATGCTGAGAGGGAGACGCGTCAGAATGTTCTGCTCTCAGCCACACTCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003534:ENSGALT00000005588:9
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:
PF0027024=DEAD=FE(22.5=100)
A:
NA
C2:
PF0027024=DEAD=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTATTTCAACTCCTGGTCGC
R:
TTCAGTGAGTGTGGCTGAGAG
Band lengths:
206-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]