GgaINT0050664 @ galGal4
Intron Retention
Gene
ENSGALG00000018439 | DLX1
Description
Gallus gallus distal-less homeobox 1 (DLX1), mRNA. [Source:RefSeq mRNA;Acc:NM_001045842]
Coordinates
chr7:17337963-17338619:-
Coord C1 exon
chr7:17338506-17338619
Coord A exon
chr7:17338218-17338505
Coord C2 exon
chr7:17337963-17338217
Length
288 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
GTGCCGCGCTGCCGTTGCAGGTG
3' ss Score
9.18
Exon sequences
Seq C1 exon
ATTTATTCCAGTTTGCAGCTGCAGGCTCTGAACAGGAGGTTCCAGCAAACCCAGTACCTGGCCCTGCCCGAGAGAGCCGAGCTCGCGGCCTCTCTGGGACTCACCCAGACTCAG
Seq A exon
GTACGGCCCTCCGCGCCCGAGGCCCCGCGGCCCCGGGCCCGGCCCGGCGGAGCCGCGCGTACCGAAGCCGCTCGCCGCGGAGCGCCTGTCCCGTCCGCGGGGCCGGTCCCGGCCGGGCTGCGGGAGGCGGGGAGCGCGAGGCCGGAGGGAGCGGGACGCGGCGCGGGGGCGGCCGGGGCGCGGGGCGACCGCGGGGCGAGGGAGGGCGGGCGGGGGCCGTCGGGGCGGGCGGGGCGGGGGTGAGGGCCCGGTCGGGCCGCGCTGAGCCGTGCCGCGCTGCCGTTGCAG
Seq C2 exon
GTGAAGATCTGGTTCCAGAACAAGCGCTCCAAATTCAAGAAGCTGATGAAGCAGGGAGGGGCGGCCCTGGAGAGCGGCGCCCTGAGCAACGGCCGGGCCCTGTCCGGCGGCTCTCCCCCGGTGCCCGCCGTGTGGAACACCTCCTCCGCCTCCGGGAAGGCGTCCTCGGGCAGCGCCGGCACCTACATCCCCAGCTACACGTCGTGGTACCCCTCGGCCCACCAAGAAGCTATGCAGCAGCCGCAGCTTATGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018439:ENSGALT00000006647:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(71.2=97.4)
A:
NA
C2:
PF0004624=Homeobox=PD(25.0=15.3)
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:
GCAGGCTCTGAACAGGAGGTT
R:
CGTGTAGCTGGGGATGTAGGT
Band lengths:
295-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]