GgaINT0046100 @ galGal3
Intron Retention
Gene
ENSGALG00000002552 | COL3A1
Description
NA
Coordinates
chr7:587503-588237:-
Coord C1 exon
chr7:588193-588237
Coord A exon
chr7:587557-588192
Coord C2 exon
chr7:587503-587556
Length
636 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGA
5' ss Score
4.07
3' ss Seq
TATTTCTTTCACTTTTTAAGGGT
3' ss Score
9.71
Exon sequences
Seq C1 exon
GGTGCCCATGGCAAAGATGGAGCTCCTGGAGCGGCAGGCCCACCT
Seq A exon
GTAAGACTTACAGTTGTTTGAATTTAAATGTTTGTGTTGCTCAAGTATTAGTCAAGATACTTGAAGACTACCGTGAAAATAGGAGACTTTTAACACTGTAAATCAGAAAATGCATAAATCTGGAGACAGATTGTTCTCAGGGAACATGTAGATGGATAGAGCTGCAGTTCTCTGTGCAGAAAGAAAAGAGTCGTCTTATCAAAGACAATATTTAGCTGAAGTGTGCAAAAGTCTTTTTTCTTTTTCATCTTCATGATGAAACCTGAGCATGCCCACATGTATGTATAACACTTCTATTGACTTGCTTTTCTCTTACATCTCTTTTCTTAATAAAAATTTTGACCTATTTTATAACTTAATCTCTTTCATGATAAATTTATGTGTTTTTTTAATCTTAAAACACATAAATTCAGCTGAATATGAACATGAAAGTCAGGGTAGGTGACATATAGGTGTGATATTGTAGGTCTAGCCAAGCTTCATCTTCTACAACATGGTTTATTTTGCCTATTTTGCCAGGTGTTTCTTTATTCAGAGAATAATGTCATAATCAGACATTTTTTTTAAACTTCAGATTAATTCTATCCATATGGCTTTTTACTTCTTGTATTAATAGTATTTCTTTCACTTTTTAAG
Seq C2 exon
GGTCCTCCAGGTCCCCCTGGAACTGCAGGATTTCCGGGCTCTCCAGGTTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002552:ENSGALT00000004033:17
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=PD(13.1=73.3),PF0139113=Collagen=FE(20.9=100)
A:
NA
C2:
PF0139113=Collagen=PU(32.8=76.0)
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]