GgaINT0046112 @ galGal4
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
Gallus gallus collagen, type III, alpha 1 (COL3A1), mRNA. [Source:RefSeq mRNA;Acc:NM_205380]
Coordinates
chr7:576015-576677:-
Coord C1 exon
chr7:576624-576677
Coord A exon
chr7:576069-576623
Coord C2 exon
chr7:576015-576068
Length
555 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
CCTTCTTTGTTTGATTCTAGGGT
3' ss Score
10.16
Exon sequences
Seq C1 exon
GGTCCTGCTGGGAAGAATGGTGATGTTGGCCTCCCCGGTCCTCCTGGACCTGCT
Seq A exon
GTAAGTGTTGGACTCCTTTAAGAGTCACTTATCAACTGTTGCCAAGGTGGTCTGCTGCTTAGACAGAGACTGCAATTTTAGGGGAAAGAATACTTTTATGTTCTAAAGAAAACTCCTTTTATGAAGATAAACACTAGATCTTTCCATTCCCATCCTTCCCCGTATTTTTCATACCTTAATACTCAAAACTTTGTAAGGAGAAACCTGAGGCAGGTATATCCAGTGTAAGTTGAAATGAAAAGTCAATTCACAGCTGTCAAGGATGTAGCAGCTTTTCTAATTGAGATGTATTAGTACTCCCTTTGAAGCTTATCAGAGCTAGCAATTTCAGTCTAGTGTCAAATATTCCTGTGAGTTAAATATTTCTGCTGAATTAATCTGATGGTTAGAGTGAAAAGAGCAAATAACAGAACACCAAGATATATCAGCCTTAGAATTGCACAGTGTCTTCTTCAGTTCAAGATAAGGAGGTGTAGGTTAAAGGTGGTGTGGAATTGTTTGAGAATGTCTTTATCTATAAGCAATTTCATTTTTTCCTTCTTTGTTTGATTCTAG
Seq C2 exon
GGTCCTGCTGGGGACAGAGGAGAACCAGGACCATCAGGTTCACCTGGCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004032:26
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:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]