GgaINT0127642 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4714030-4714621:-
Coord C1 exon
chr18:4714457-4714621
Coord A exon
chr18:4714144-4714456
Coord C2 exon
chr18:4714030-4714143
Length
313 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAG
5' ss Score
6.62
3' ss Seq
TCCCTTTTCCTTCTCCCTAGGTA
3' ss Score
13.72
Exon sequences
Seq C1 exon
GGGAGCCCAGGAATATCTATGTGGAAGGTGACAATCCAGAAACAACCCTGACTGTGCCCCACTTGAAGGAGAACATCCCGTACAAGTTCAAAGTGCAAGCCAAGACCACCCAAGGCGTTGGGCCGGAGAGAGAAGGCATCATCACCATCCAGTCACAAGATGGAG
Seq A exon
GTACAGAACCACATCCTTCTGGATATGCAGAGATAAGAAAGATCTCAGAGCAGGGAATGTGCCTTCGGGGCTCCTTTTCTGAACCACTCTGGAAGCCACCATTCTGGTGGTGCTTCCAATTTCCATAATCTCCATGAGGAAGGCAATGCCGTGCTTTGTGAGCGCTGCCCCTATTCTGCAAAGTGCACTGAATGTGGGGGATGACAGCAAGAAAAACCTCCTGAGCTGACTGCTGGTCCCCGCTGAGCAGGGTTGAGATGCTGGAAGCTCCTTGCTGTATCCTGGCTCATCTGTCCCTTTTCCTTCTCCCTAG
Seq C2 exon
GTACTTTCTCCCAGTTCGGAGGACAGCAATACACAAAAGAGGTGTACAACTTCCCCACAGAATACAGCACCAAAACCAGCATCAGCCATTCCTCTCTGGACCCCCACTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(49.4=76.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCCCAGGAATATCTATGTGG
R:
CTGAGAAGTGGGGGTCCAGAG
Band lengths:
278-591
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]