GgaINT0016414 @ galGal3
Intron Retention
Gene
ENSGALG00000001967 | E1BVQ5_CHICK
Description
NA
Coordinates
chr14:14348374-14349170:-
Coord C1 exon
chr14:14349054-14349170
Coord A exon
chr14:14348495-14349053
Coord C2 exon
chr14:14348374-14348494
Length
559 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TAACTGCTTTTTCTCTCCAGGTG
3' ss Score
11.87
Exon sequences
Seq C1 exon
GAGTACATGCACATGATGGGCCTCAGCAACTGGCTGCACTGGAGCGCCTGGTTCCTCATGTTCTTCCTCTTCCTGCTGGTGTCTGTGTTCTTTGTCACCCTGCTCTTCTGTGTCAAG
Seq A exon
GTGAGTGTGTTTCCTCAGGCCAGAAGCTCTGTGCTGGTGGGGCACGAGGGCAGCAGGGCTCCTTTGTCACAGGTTGGTTTGTACCAGTGACTCAGGCCTCATACATGTGCCTCAGAGCCTGAAGCTGTTGGGTGGACAGAGCCTGAGCACTGCAAAGGGCACCTGGGAGCCCGTTTCAAGTCACTCTCAGCTTCAGGAGGGTGAATTGATAACCGTGCACCCAAAGCTGCCTTTGCCAGCAGCTCCTCCCCCAGGAGGAGCAGACGTGTCCCACTGCTGAGCACTGCATCCTCAGGGGACTCGGGCTCCCCTCGCTGTGCACCCACAGCATGGGAAGCATGAGGTGGCTGTCCAGGTGCAGAGCACGGTGTCCTCATAGACCCTGCATGGGGACAGCCCTTATTTCCTCCCTCTGGACTGTTCTAAGAGGGCCTGAGCGTTCCTACCTGCCTCTACATCTGTCTTTAACCGTGGAGACCATCATGCCTGGGATGCCTTTGTGTGCCTGCAGCCGTGGCTGGCTTTGCCAGCTGCAGAGGTAACTGCTTTTTCTCTCCAG
Seq C2 exon
GTGAGTGAACAAGGAGCTGTGCTCACCAGCAGTGACCCCACGCTGGTGTTCACCTTCCTCGCCATCTTCTCCATCTCCACCATCTCCTTCAACTTCATGGTGAGCACCTTCTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:8
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(12.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACATGATGGGCCTCAGC
R:
CTCTGGAGAAGAAGGTGCTCAC
Band lengths:
230-789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]