GgaINT0125087 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:807355-807725:-
Coord C1 exon
chr17:807551-807725
Coord A exon
chr17:807471-807550
Coord C2 exon
chr17:807355-807470
Length
80 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AAAGTTTCTGTCCTCTCCAGCTG
3' ss Score
8.45
Exon sequences
Seq C1 exon
CCTGCAAGGCACAGATGTGGTGATTGCCATCTTCATCATCGTGGCCATGTCCTTTGTGCCAGCCAGCTTTGTGGTGTTCCTGGTAGCTGAGAAGGCCACCAAGGCCAAACACCTGCAGTTTGTGAGCGGCTGTGACCCTGTCATCTACTGGCTGGCCAACTACGTGTGGGATATG
Seq A exon
GTGAGTGGGGCACATGGCCTCACTGTTGATCCCCCTGGGCTGAGCAGGCAGGCAGTCACCAAAGTTTCTGTCCTCTCCAG
Seq C2 exon
CTGAACTACCTGGTGCCGGCCACGTGCTGTATCATTATCCTGTTTGTGTTTGACCTCCCGGCATACACCTCTCCCACCAACTTCCCTGCTGTCCTCTCACTCTTCCTGCTGTATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:34
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:
PF126982=ABC2_membrane_3=FE(17.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(11.6=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:
TCATCGTGGCCATGTCCTTTG
R:
TAATGATACAGCACGTGGCCG
Band lengths:
177-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]