GgaINT0125094 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:804115-804713:-
Coord C1 exon
chr17:804572-804713
Coord A exon
chr17:804250-804571
Coord C2 exon
chr17:804115-804249
Length
322 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGG
5' ss Score
6.91
3' ss Seq
CAGCCCTCTGCACCTTGCAGGTG
3' ss Score
7.5
Exon sequences
Seq C1 exon
CATCCTGAAGGAGCTCCTGCAGGTCCAGCAGAGCTTGGGCTACTGCCCCCAGTTTGACGCGCTCTTTGATGAGCTGACAGCCCAGGAGCACCTGGAGCTCTACACGCGCCTGCGTGGCATCCCCTGGAAGGACGAGGAGCGG
Seq A exon
GTAGGGTTTCGGTAGGGCGTTTGGCAGTGCCTGAGGGCTGGTGCTGTGCCACAGTCTGCTCTGGGAACAGCATCTCAGCTATCACTGGTAGACACCAAAGTGGGTGCAGCCCCACTCATGACTGCCTGCTGCTGCCTCAGCAGTGCTCCTGCGGCGTGTCCAGGGCTGCGCATAGGTGCAGGGAGGCCCCGGTGGTGCTCAGAGCTGTGTGAGGGGCTGCCACGGGGCTATTTGCCCATTGCCCTCTGCCTGCTCTTCACATCTTTTGCCCAGGAGTGTTTGGGTCCCCAGGAGGGTGATCACAGCCCTCTGCACCTTGCAG
Seq C2 exon
GTGGTGAAGTGGGCGCTGAAGAAGCTTGAACTGACCAAGTATGCTGACAAGCCTGCCAGCACCTACAGCGGAGGCAACAAGAGGAAGCTGTCCACAGCCATCGCTCTGATTGGATACCCAGCCTTCATCTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:41
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:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGAAGGAGCTCCTGCAGGTC
R:
GGAAGATGAAGGCTGGGTATCC
Band lengths:
270-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]