GgaINT0050664 @ galGal3
Intron Retention
Gene
ENSGALG00000018439 | E1C1N2_CHICK
Description
NA
Coordinates
chr7:19237619-19238266:-
Coord C1 exon
chr7:19238198-19238266
Coord A exon
chr7:19237908-19238197
Coord C2 exon
chr7:19237619-19237907
Length
290 bp
Sequences
Splice sites
5' ss Seq
CAGGAACGG
5' ss Score
2.69
3' ss Seq
GTGCCGCGCTGCCGTTGCAGGTG
3' ss Score
9.18
Exon sequences
Seq C1 exon
CAAACCCAGTACCTGGCCCAGCCCGAGAGAGCCGACCTCACAGCCTCTCAGGGACACACCCAGACACAG
Seq A exon
GAACGGCCCCACCGCGCCCCGAGGCCCCGCGGCCCCGGGCCCGGCCCGGCGGAGCCGCGCGTACCGAAGCCGCTCGCCGCGGTGCGCCCGTCCCGTCCGCGGGGCCGGTCCCGGCCGGGCTGCGGGAGGCGGGGAGCGCGAGGCCGGAGGGAGCGGGACGCGGCGCGGGGGCGGCCGGGGCGCGGGGCGACCGCGGGGCGAGGGAGGGCGGGCGGGGGCCGTCGGGGCGGGCGGGGCGGGGGTGAGGGCCCGGTCGGGCCGCGCTGAGCCGTGCCGCGCTGCCGTTGCAG
Seq C2 exon
GTGAAGATCTGGTTCCAGAACAAGCGCTCCAAATTCAAGAAGCTGATGAAGCAGGGAGGGGCGGCCCTGGAGAGCGGCGCCCTGAGCAACGGCCGGGCCCTGTCCGGCGGCTCTCCCCCGGTGCCCGCCGTGTGGAACACCTCCTCCGCCTCCGGGAAGGCGTCCTCGGGCAGCGCCGGCACCTACATCCCCAGCTACACGTCGTGGTACCCCTCGGCCCACCAAGAAGCTATGCAGCAGCCGCAGCTTATGTGAGCCCGAACACGTTTTTTCCCGCCGCGAGCCGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018439:ENSGALT00000006647:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.826 A=NA C2=0.512
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(37.3=100)
A:
NA
C2:
PF0004624=Homeobox=PD(22.0=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:
CTCACAGCCTCTCAGGGACA
R:
AAAACGTGTTCGGGCTCACAT
Band lengths:
303-593
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]