GgaINT0043434 @ galGal3
Intron Retention
Gene
ENSGALG00000007078 | F1P328_CHICK
Description
NA
Coordinates
chr6:23439926-23440901:+
Coord C1 exon
chr6:23439926-23440085
Coord A exon
chr6:23440086-23440660
Coord C2 exon
chr6:23440661-23440901
Length
575 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
CTTCAAATTTTTTTTTCAAGTCT
3' ss Score
4.75
Exon sequences
Seq C1 exon
GTTGGAAAATAAAGATGCAGCTGAAAAAGTCTTGTCCTCAGTAGAGAAGACACTACGCTCAGCTCCCTTCAATTTCCAGGGCGCCAGAATCATCAGTGGTCAGGAAGAAGGAGCCTATGGATGGATCACCATTAACTACTTACTTGGTAATTTCAAGCAG
Seq A exon
GTATTGTATCACTGGCAAGTCTAGATTTGAACCACTGGCCGGCAGTGCTGTGTAAATCATGCCTTTCATGGGGGTGTTTCAGGAGGCTCCCTGTGAGACATTTATCAGAGACCAGGATGCTGTGCTCCTTAGACAGTCTTAGAGCACTGAAATAAAACAACAGTTTCAAGAACTTTTCCTGGATACAGCATCTTTCTCACTTGCTGATCTAAAATACTTCTGTGCTTGGTTAAATATCTGCAAAGTATCAATAAAACTTTTCAGTATTTGATGATGATTCTTTACTATCTGGTTTATAAATCATCTGGGCACTGAAACAGTAAACTGACTTTTCACATAGCAGTTGTGTTTGATTACGTGTTCCTCAACCTCCTGCAAATACTTGGACGTGATCCATCTTCTGCTCTTCTGAGCCTGCACCTTGTTCTGGTTCTCATCTCTTGCCCTCCTCCAAGCCCTACTCCCTTTCCTGCATTCTGTCCTTCTGCTACTATTCTACGAAGACGTTCTCTTTTTGTTCCCAAATACATCTTCTCCATGCCTGATGAATCTGTACTTCAAATTTTTTTTTCAAG
Seq C2 exon
TCTGGCTGGAAAAAATTTCTACATTCCCTGAAATCTGTAAGTGAAACATCAGGAGCGTTAGACCTTGGAGGAGCCTCAACACAGATTACCTTTGTACCAGATGAAATCTCTTCTGAGTCGCCACAGAATTTGCTGTATTTCCGCCTCTATGGCAAGGATTACCGAGTGTACACGCACAGCTTCCTTTGCTATGGGAAGGACCAGGCTCTGCAACAGAAACTGGCCAGGGACTTACAGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007078:ENSGALT00000033272:4
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(12.2=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(28.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACACTACGCTCAGCTCC
R:
CTGGCCAGTTTCTGTTGCAGA
Band lengths:
342-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]