GgaINT0124249 @ galGal3
Intron Retention
Gene
ENSGALG00000004142 | F1P4F0_CHICK
Description
NA
Coordinates
chr17:6276126-6276859:+
Coord C1 exon
chr17:6276126-6276238
Coord A exon
chr17:6276239-6276686
Coord C2 exon
chr17:6276687-6276859
Length
448 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
TTCCTCTTGGATATTTCCAGGTT
3' ss Score
7.01
Exon sequences
Seq C1 exon
CCCAGATGCAGGCTTCTGGGAAAAAGAAGAAAGAACTTCGTTATCGCAGTGTGATCTCTGATATCTTTGATGGCTCCATCCTCAGCCTGGTGCAGTGCCTCACCTGTGACAGA
Seq A exon
GTGAGTGTCCTGATAGCTGTTGGTCAATGAGCAGTCTTCTGTAGACCTCATAGACCTCTTTTTTTGTTGGTTTTTTGGTTTTTTTTTTTTGGCAATGAAGCTTTCTGTTTCCATGCTGTGGGATGCAGCAGGCCTGCTAAAATCTTGGCAGGTGGGATGTGTTTGAGACCTGCCATGCCAAGAAATTTTCAGCCTCCGTAGTGATGTTTGCTTATCTGTGCTACTGAGTTGGTCTAGCACTGTCACATTCACATCAGAAAACAAATTCCAACTCTGCAAAAAGATGGTGAAAGTCCTCCTGCTGACAGTAGGTAAGAAGAACTAGCCTGAGCAAGTTGCTGTTACTGCCAGGTCAGGTTTCTGCAGTGATTAAAAAGTGATGGAAGTCAGGTCCTGGCTTCATTACGTGCACAGGAAACCCAGGCTTTTTCCTCTTGGATATTTCCAG
Seq C2 exon
GTTTCTACAACAGTGGAGACATTCCAAGACCTGTCACTCCCAATCCCAGGGAAGGAGGACCTGGCCAAGCTGCACTCTGCCATCTACCAAACAGTGCCAGCTAAGACAGGGGCATGTGGGGACAACTATGCCTCGCAAGGCTGGATTGCTTTCATCATGGAGTATATCCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(6.9=100)
A:
NA
C2:
PF0044324=UCH=FE(10.7=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:
CCCAGATGCAGGCTTCTG
R:
CTCCGGATATACTCCATGATGAAAGC
Band lengths:
286-734
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]