GgaINT0043432 @ galGal3
Intron Retention
Gene
ENSGALG00000007078 | F1P328_CHICK
Description
NA
Coordinates
chr6:23438185-23439101:+
Coord C1 exon
chr6:23438185-23438302
Coord A exon
chr6:23438303-23438950
Coord C2 exon
chr6:23438951-23439101
Length
648 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
AGTCTTCCAATTTCTTGCAGGCC
3' ss Score
8.67
Exon sequences
Seq C1 exon
TATGGGATTGTGCTAGATGCGGGGTCATCCCACACAAACCTGTACGTGTACGAGTGGCCAGCAGAGAAGGAGAATGACACTGGAGTGGTGCAGCAGGTGGAGGTGTGTAAAGTCGAAG
Seq A exon
GTAAGAGGAAAGAAGGAAGCAGTGAAAGGGGGTGGATTGGAAAGAGAATGTGGCCAAAGGGTGGTGGAGATGAAATTTGGGGAACTGACCAATAGTGATATCAACATTAAATCTATGAACTAACGTATATTCCACTGCTTCCTGCTAAGAACTTATTGCTTGAACTTCCCGAGAGAAAAGCTGGGTCCATTTTTCCTTTCATTTGGGGATGCACAGAGTTAAATGCTTTTTGGAAAGAGCTACACCAAGGGTTGTACTTAACAACAACAAAATGGAATTTCTGTGTGTACCCTTGCTGAAGCACCAATAAACATCAGTGAGGAAGGAGGACACTCTGATCTCATTTTAAAGGAAAGATGTTGGATTTATGTGACAAGGTTACTAAACTTGAGCATGTTGTGGTTTATTTTTTTATAATATTTAGTTGCTATGTAGATATGTAATGGTTTTGGAAGGCATAAAGAATGCTGTCAGTCACAGCTTTTGTCACAGGAATGACTGATGCTTTAGGGTTTCTGAAACCTACAAATGGCGTTGAATCAACTGTTGCTGCTTGTGCTAGTGATATTGTTTAGTGGACAAGGCTCATGACAGCCTTCTGGGGTTATGCTTGGAGATGATGCAATGAAGTCTTCCAATTTCTTGCAG
Seq C2 exon
GCCCAGGGATCTCAGGTTACTCCCAGACCACAGAGAAGGCAGGTCCCTCTCTGGTGCAGTGCCTCAGACAAGCAGAAGGGGTGATTCCCTTAAAGCAGCACCAAGAGACGCCCGTCTACCTCGGAGCAACTGCTGGCATGCGGCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007078:ENSGALT00000033272:2
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:
PF0115012=GDA1_CD39=FE(13.7=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(11.5=100)
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:
GATTGTGCTAGATGCGGGGTC
R:
TGAGGAGCCGCATGCCAG
Band lengths:
263-911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]