GgaINT0125601 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5418282-5419033:+
Coord C1 exon
chr17:5418282-5418335
Coord A exon
chr17:5418336-5418970
Coord C2 exon
chr17:5418971-5419033
Length
635 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CATCTCATTTTTGCTTGCAGGGA
3' ss Score
9.49
Exon sequences
Seq C1 exon
GGAGACTTTGGGGAGGCAGGATTCCCAGGGATCGCGGGCATCTTTGGGCCAAAG
Seq A exon
GTAAGAGGTGACCCGGTGACCGGTTGGCTTCCCAGTCCCTCTTTTCTGGGAACAGACACTGCAATACCTACTGAAAGTTATTTGGTAGCAGCTCTGCAGAAACTACTGAAATTCGATTGTGATTCCAGCTTCAAGTCTGTATATCTTCAAATAATCCTCGAGTATTGCATTACATATGCTCTGATGAAGCTTATTTCTATTAACTACGCTGTAGATGGAAGATGGGTGTTCTATAGACCCCCCCTCCACCTGAAGATATTTCAATCATAGAATCATAGGATCAGTAACCTTGGAAAAGGCCACTCAAATAACCAACTCCAACCATCAACCCATCACCACCATGCCCACTCAGCCACATCACTCACTGGCACGAGTTCATTTCTCCAACATTAATCATCAGTCGAGAGACTTGACTGGAAATTTGGGCTCATTTGACCAAAATGTAATTTTGATGGGGAAAGGGAACCGGGCTGTTTTCTGTAGAAAGTAAAGGGCTTGCAAAACAGGAGTGGAAAAAGAATGTTTTTAGTCAGACCTTCCAATTCCCATGTAGTAGAGGCAGCAGAGCTGCAATCCAGAGCATCAACGTGGGGTGCATTTATTAATGGGCTCTGACATCTCATTTTTGCTTGCAG
Seq C2 exon
GGACCTCCAGGAGACCCCGGTTTCAAAGGCATTCAGGGACCACGTGGCCCACCTGGCATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:58
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(21.8=100),PF0139113=Collagen=FE(23.3=100)
A:
NA
C2:
PF0139113=Collagen=PD(2.6=9.5),PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(7.6=23.8)
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]