GgaINT0126706 @ galGal3
Intron Retention
Gene
ENSGALG00000008936 | F1NV60_CHICK
Description
NA
Coordinates
chr17:1322357-1322891:+
Coord C1 exon
chr17:1322357-1322467
Coord A exon
chr17:1322468-1322753
Coord C2 exon
chr17:1322754-1322891
Length
286 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTGCTCTTCCTCATCCACAGTTG
3' ss Score
9.37
Exon sequences
Seq C1 exon
GCTTTTTCAGCATTTTATTACAACCTCCACTTCCTGAACCTGACTGAAGAGCAGTCCCTGAGTTCCGTCAATGACACTGTCTGGAAATTCTGCTCCAGAAGTTGGATGACG
Seq A exon
GTGAGATCCTGGCCAGGAGCTGCTGATCCCTGCCCTTGTCTTGCTCAGCCTGGGCACCACGTGCCTCGGGGGTCTGTTCACAGCCTGTCCTCTGCTATGCAGAAGGGCCACTGGGGGAGCTGGAAGGAGCACAAAGGTCTCTGGGCTGGGTGGGAGAGCAGCCAGCATCCTCCCACGTGCTCCTTGCTCCCCAGGTCTTTGCTCCTGGCTGTGCTTTCCCTACAATGTGGGTGCACTGAGCATTGCTCTGTACATGCAGCCCCACCTTGCTCTTCCTCATCCACAG
Seq C2 exon
TTGCAGAAGGACTTTCCCACCAAGAACAGGATCCACCTCCGTGACTCCTGCGCAGCCAGCTCCTACGTCCTCACCCTCCTGCTGCAAGGCTACAAATTTGATGACAGGACATGGCTCAACATCCACTTCCGAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008936:ENSGALT00000014522:7
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:
PF0115012=GDA1_CD39=FE(8.4=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(10.5=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:
TTCAGCATTTTATTACAACCTCCACT
R:
CTGCTTTCGGAAGTGGATGTTG
Band lengths:
244-530
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]