GgaINT0126852 @ galGal3
Intron Retention
Gene
ENSGALG00000004370 | F1NVF2_CHICK
Description
NA
Coordinates
chr18:8025470-8026567:+
Coord C1 exon
chr18:8025470-8025547
Coord A exon
chr18:8025548-8026427
Coord C2 exon
chr18:8026428-8026567
Length
880 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGG
5' ss Score
5.88
3' ss Seq
GTTGGGTGCTGTCTCCTCAGATC
3' ss Score
7.9
Exon sequences
Seq C1 exon
CCTGAAAGAATTAACCCGGAGTTGAACCAGAAGGGGTACAGCGTCAAATCTGATATCTGGAGCCTGGGGATCACGATG
Seq A exon
GTAGGGGGATCACAATGGTAGGACAATCTGGGGGTTGCAGCAGTGCTGGAGGCTTGGCTGTGCTTTGTGTATTTGTTTTTCTCCCCATAGCTCCTTGATACTGATGGCAGTGGTTCCCTGGGAATGTGGTAGGCTGGGAGGGGGTACACAGCTCTACAAGATACCAGCAAGTACATGGTAGGGTCGAGGGTAAGGGAGGATGGAGCTGCTTTGCAAAGTCCTTGCTGCTTTGGATGCATTGGCATGGCAGGACTGGACACCAGGGATGTCCAAACGTTGGCCAACCATTGGGTGTCCAACCTGTGGCTGTCCCTGCAGCATGCCACCCCGATGGGGACAGCTGTGCTGTGGTGGCCTCAGGCTGCCGGAAGATGGCAGCATGGGCTAAGGCAACGGTGTCCATCAGTGCAGCAGGTTGGATTCCAATCTGAAACAGCACTCCTAGCACTGAGTGCTTAGTAAAGTCTTCTCACAGGAGGAGGCATTGGGTGTTGATAATACCTTTTGCATACCAGGAGAAGCAGCGTTTAGAGGGAGGCCATCAGCTTGCCTTATTATAGCACAGGTACCCTTTGCAATATGGCTTCGTTTTTTTTTAACTTGAAACCTCTCCCCAGTGACACGCAACAGGATGGCAGTGGGGAGGACTGAAGATGGAGGCTGCTGGGTCTCCTCAGGACTTCCCAGTGTAGTGGGGGAAGTAAAACACAAGGTGTGATGCCTTGAGGCCTGGTGGGGTGATGAGATGCCACGCGTTTATGCAGAGCCAAAAAAAACCCAACGGATGGTGTGGGTGCATGGGTGGGAGCACAGGCTGTCGAATGCTATGGGGCGGCCTTGGGGTGTCCCCCAGGGCTGAGGTTGGGTGCTGTCTCCTCAG
Seq C2 exon
ATCGAGCTGGCCATCCTGCGCTTTCCCTACGACTCCTGGGGGACGCCCTTCCAGCAGCTCAAGCAGGTGGTGGAGGAGCCGTCGCCGCAGCTCCCGGCAGACAAGTTCTCAGCAGAGTTCGTCGATTTTACCTCGCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004370:ENSGALT00000006971:9
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=0.043
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.5=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:
CCTGAAAGAATTAACCCGGAGT
R:
TGCGAGGTAAAATCGACGAACT
Band lengths:
215-1095
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]