GgaINT0046119 @ galGal4
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
Gallus gallus collagen, type III, alpha 1 (COL3A1), mRNA. [Source:RefSeq mRNA;Acc:NM_205380]
Coordinates
chr7:572985-573196:-
Coord C1 exon
chr7:573143-573196
Coord A exon
chr7:573039-573142
Coord C2 exon
chr7:572985-573038
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
ACCATTTTTGTTCCTTACAGGGA
3' ss Score
11.09
Exon sequences
Seq C1 exon
GGTAACGTAGGTCCCATTGGTCCTCCTGGTCCTGCTGGCCCACCTGGAGATAAG
Seq A exon
GTAAAGCATCCTTCGTGGCGCTGTGTGGCACTGTAAGCAGCAGCCTTGCTGGCTGGTTCCTGGGAAGAAGAAGGAGTCCTGGTAACCATTTTTGTTCCTTACAG
Seq C2 exon
GGAGAGACTGGACCAGCTGGTGCCCCAGGTCCTGCAGGTTCCCGTGGTGGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004032:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAACGTAGGTCCCATTGGT
R:
GGACCACCACGGGAACCT
Band lengths:
107-211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]