GgaINT0032721 @ galGal3
Intron Retention
Gene
ENSGALG00000007906 | F1NJ22_CHICK
Description
NA
Coordinates
chr9:16711678-16712682:+
Coord C1 exon
chr9:16711678-16711775
Coord A exon
chr9:16711776-16712478
Coord C2 exon
chr9:16712479-16712682
Length
703 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
GTGGCATCACCGCATGGCAGAGA
3' ss Score
1.22
Exon sequences
Seq C1 exon
GTCCCAGACATACAGCGCGAACGAAATCAACCTGCTGCTGACAGTGGAGGAAGGCCAGACCATAGAGTGGATCTTCATTGACCCCGAAGCCTTTACAG
Seq A exon
GTAACCCCGTGACCCCCCCATGGCATCCCAAGGACAAACATTCCAAGGACAAGCATCCCACTCCATGATGCCCCACAGCCTGCAGCAATGCCGGTGGCTGCTGAAATCAGTCAGTGGCAGAGGGGGGAGGATGGGGGGGCTGTTAGCAGCCCTTGCCATTACACGGGCACTTAAGTTATTAGTGGAAGATGGAGCAGGGGAAGAGATTTGTTTTACCAGCCCCCCCGGCTCGCAGCACTCACCGCTTGGCAGTCCCTCCCGGAGAGCTGCTCCTGGCAGTTTGATTGATGCTGGGAAGGTATCTGTCACGGCCAAACGATGACGTTTTCCATCACATTTTAATTGCATATTGAAGGAACAAAATGCTTTTCGGGCAGCGAGATTTATTTTTTCATTACCGGCCCAAGCTGCGATCTTGATTGGGAAAAATCTATCGCTCCCGCAGACAGCGGGGGAAAACAACGCGCCTTAATAAAGCGTCATGCTTGGCTTCCCCACGGCTGCCTGGTGGCAGGGAGATGGGGGACTCCCAGCCCCGCACATAACTCATCCCCAAAGGGCTGCAGGTATCCCCTGCTATAGCTTCCAGGGGAACTTCGGAGCACTCCTCAGTGCTCAGCTCCCCATTGTGGCCCTGGCACCTTCCACCCGCCTGGTGCCACTGGGATGTGGGGACTCAAATGGTGGCATCACCGCATGGCAG
Seq C2 exon
AGAATGGAGAATGGGCCATCAAGCACCGCCCTGCACGGAAGATCATCAATTCAGGGCGCTTCACCCCAGATGACATCCAGTACCAGCAGGTGATCTTCTACCTCATCATCCAACGCAAGCCGCTCTTCTACATCATCAACATCATCGTGCCCTGTGTTCTCATCTCCTCCATGGCTGTGCTGGTCTACTTTCTGCCTGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007906:ENSGALT00000012833:7
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:
PF0293118=Neur_chan_LBD=FE(15.1=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.3=58.0),PF0293211=Neur_chan_memb=PU(8.6=30.4)
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:
GTCCCAGACATACAGCGCGAA
R:
CTTTGGCAGGCAGAAAGTAGAC
Band lengths:
302-1005
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]