GgaINT0127619 @ galGal3
Intron Retention
Gene
ENSGALG00000002389 | E1C9G7_CHICK
Description
NA
Coordinates
chr18:4726699-4727049:-
Coord C1 exon
chr18:4726923-4727049
Coord A exon
chr18:4726822-4726922
Coord C2 exon
chr18:4726699-4726821
Length
101 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
TGGTATTCCAAATCTGTTTGCAG
3' ss Score
-8.2
Exon sequences
Seq C1 exon
GGCTTCCAGGCCGTGTGCGAGAGCATCAGGGACTGTGTGCAGTGCCAGGCCTGGGGAACAGGCAACAGGAAAGGGAACTGCAGCATGTGCCACCTCCACGTGCAGATGGTGGAGGAGCTGAAGAAAG
Seq A exon
GTACCGAGATGCAGAGACGTGGGATCTGCCTGCCCTATGCATGGCCTGGGGGTGCTAGTCCTGGTGACCACAGCCTGATGATGGTATTCCAAATCTGTTTG
Seq C2 exon
CAGAGGAGGCCAATGAGTACTGCTCCTTCCAGGATGAGGAGGATGACTGCACCTACCACTACATGTTGGAGGGAGACCCCAGTGTTCTCCCCAATGCCACTGTCCAGGTGCAGAAGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:15
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:
PF079657=Integrin_B_tail=PU(43.5=86.0)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(48.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCAGGCCGTGTGCGAG
R:
TTCTTCTGCACCTGGACAGTG
Band lengths:
242-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]