GgaINT0043433 @ galGal3
Intron Retention
Gene
ENSGALG00000007078 | F1P328_CHICK
Description
NA
Coordinates
chr6:23438951-23440085:+
Coord C1 exon
chr6:23438951-23439101
Coord A exon
chr6:23439102-23439925
Coord C2 exon
chr6:23439926-23440085
Length
824 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CCTTTCTTCCATTCATCCAGGTT
3' ss Score
9.48
Exon sequences
Seq C1 exon
GCCCAGGGATCTCAGGTTACTCCCAGACCACAGAGAAGGCAGGTCCCTCTCTGGTGCAGTGCCTCAGACAAGCAGAAGGGGTGATTCCCTTAAAGCAGCACCAAGAGACGCCCGTCTACCTCGGAGCAACTGCTGGCATGCGGCTCCTCAG
Seq A exon
GTACCACAGTGCTCATCTCCTTCCCTTGCATCTTAGACCACCGCAGACACCAAGTGGTGTCTGTGCAGTGAAGTCACTGGAAATGCTACCAGCTGGTGCTCTGCCCAGACCTCCATCTCTCTGGACCCCTGATCTCCCCAGACTCTTTCCCCACTTGCCTGTCAGGTCTGTTTCCACCTGCTTCCCCCTTCCATCTTCTCCAGCACCCACGTGCAACGCAGACACCAGGAAGGATAGCCGTGCCCAAACTGGTACTTGGAGAAGTTGTTCAAACATCTGTCATAGTCTAGTAATAGATGTGACCCACAGTTTTTGTGCCCTGTCATGTTTTAACTCCCCACATACCTCGACTTGGCCTGAAACCACCAAAGCTAAGGTAACTATATAGTTCAAATTTATGATTTTTCTTGGGGTGACTCAGACCTGTTACCTGGCTGTATCAGCGAGCTAATTTCATCTGTTTTGCCTAGGGAAACTCCCTGGGGATACCAGAAGGCATGGAGCCCTTCTGAAATGCTGAAAAGTAAGAAGGATCTCCCTTGTGTCATCCTTACCAGGGAATGTGCTCTAGGAGAGCAGGGGAGCTCTGCTCCAGTTCCTGCTGTCAGCTGCAGTGTCTGCGTCAGGGCTGATAGCAGCTGTGCTGTCAAGGTGTGACTGAGTGACATGGCCAGTTACAGCTGGATGTACCCATGTAAAGGACTGTCACGTTACAACTGATGGTTGATGGGGGGTTGCAGCCTATCTATCTGCTCAGAGTGAAGCCCATAAGCTGCTGAGGGCTGTCAGCTGCAGTCACTCCATCCTTTCTTCCATTCATCCAG
Seq C2 exon
GTTGGAAAATAAAGATGCAGCTGAAAAAGTCTTGTCCTCAGTAGAGAAGACACTACGCTCAGCTCCCTTCAATTTCCAGGGCGCCAGAATCATCAGTGGTCAGGAAGAAGGAGCCTATGGATGGATCACCATTAACTACTTACTTGGTAATTTCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007078:ENSGALT00000033272:3
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(11.5=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(12.2=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:
GCCCAGGGATCTCAGGTTACT
R:
CTGCTTGAAATTACCAAGTAAGTAGT
Band lengths:
311-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]