GgaINT0046112 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:580614-581276:-
Coord C1 exon
chr7:581223-581276
Coord A exon
chr7:580668-581222
Coord C2 exon
chr7:580614-580667
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:ENSGALT00000004033:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(6.9=27.8)
A:
NA
C2:
PF0139113=Collagen=PD(24.2=83.3),PF0139113=Collagen=FE(23.6=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:
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]