GgaINT0125070 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:817135-817795:-
Coord C1 exon
chr17:817645-817795
Coord A exon
chr17:817340-817644
Coord C2 exon
chr17:817135-817339
Length
305 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CACTTTCCTCCTCACTGCAGTCT
3' ss Score
8.05
Exon sequences
Seq C1 exon
CTTCCTGGTGTCAGTGCTCTACTCCAAGGCCAAGCTGGCTTCTGCCTGCGGTGGCATCATCTATTTCCTCAGCTATGTGCCCTATATGTATGTGGCCATCCGGGAGGAGGTGGCTCATGACAAGATCACAGCATTTGAGAAGTGCATCGCG
Seq A exon
GTGAGTTGGGTGCAGCTGTCAGGAGGTGCCTGGCCCAGGCTTTGCCTCAGGTACCCTATGTCTCCTGCATAGCTACCACCAAGTCTTGGGCACCCCACATCTCACAGACAGTCCACCAAACGCTATGCAAATCTGTGCCCATGTGAACTGGCTCTCCATGGGACTTTGGAGGCATCTCCAGAAGGTCTGGTACCTCCCAGGGTGGGAAGCACCTCCATGGGTTTGGGTGGGGCAGAGCCAGATGGGAATTTACTCCAGAGTTGGCATGTGGCTCCTGCTGATGTGCACTTTCCTCCTCACTGCAG
Seq C2 exon
TCTCTCATGTCCACCACGGCGTTTGGGCTGGGCTCCAAGTACTTTGCACTGTACGAGGTGGCTGGCGTGGGCATCCAGTGGCACACCTTCAGCCAGTCGCCTGTGGAAGGAGATGACTTCAACCTCCTGCTGTCCATGATGATGCTGATCATCGATGCTGTGGTGTACGGGGTGCTCACGTGGTACATTGAGGCTGTGCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:17
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=PD(11.5=78.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(26.5=88.4)
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:
TCAGTGCTCTACTCCAAGGCC
R:
GTGCACAGCCTCAATGTACCA
Band lengths:
342-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]