GgaINT0098076 @ galGal3
Intron Retention
Gene
ENSGALG00000007559 | E1BZW8_CHICK
Description
NA
Coordinates
chr2:16015921-16016230:-
Coord C1 exon
chr2:16016119-16016230
Coord A exon
chr2:16016031-16016118
Coord C2 exon
chr2:16015921-16016030
Length
88 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CCATCTGTGCAAAATTTCAGGTG
3' ss Score
6.92
Exon sequences
Seq C1 exon
GCAGTTCTAGCTGGTGATTTCATCCTATCAGCTGCTTCCTTAGCTTTAGCACGAATTGGAAACACTACTATCATCTCTGTTCTAACTCAGGTGATTGAAGATCTGGTGCGTG
Seq A exon
GTAAGGTCTTTTTCCATTTTTATCTTCAGGCTTGTTTGCTTCAGCAGTAAACCCACAAATAAAAACTTCCATCTGTGCAAAATTTCAG
Seq C2 exon
GTGAATTCCTCCAGTTGGGTTCCAAGGAAAACGAGAATGAGAGATTTGCTCACTACCTCGAGAAGACTTTTAAGAAGACTGCGAGTCTGATAGCAAACAGTTGTAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007559:ENSGALT00000012224:6
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:
PF0034812=polyprenyl_synt=FE(14.1=100),PF073076=HEPPP_synt_1=FE(27.8=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(13.7=100),PF073076=HEPPP_synt_1=FE(27.1=100)
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:
GCTTCCTTAGCTTTAGCACGA
R:
TGTTTGCTATCAGACTCGCAGT
Band lengths:
178-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]