GgaINT0043074 @ galGal3
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
NA
Coordinates
chr6:12134003-12134782:+
Coord C1 exon
chr6:12134003-12134101
Coord A exon
chr6:12134102-12134728
Coord C2 exon
chr6:12134729-12134782
Length
627 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
GGCTGTGTTGTTGTGTGCAGGGA
3' ss Score
8.62
Exon sequences
Seq C1 exon
GGTCTTGATGGCCCCACTGGAGAGAAAGGAGAACGAGGTGACCAAGGGATGCCAGGACCACCAGGATTGCCGGGTCCCATTGGACTTCCAGGATTGACA
Seq A exon
GTAAGAGTGAAAAAGACAGGCTGACCTTTCCTGCTCAGTGAAGAAAAAACAGTACAGAGCAACACGCATTTCCCAAAGTGCAGTATATCTCAGGATCCTTTGACCATCCTATCCCTTGGAGCTAGGTGCTTCAGCATCAGCAGACATCTGTCAGGTCTCTGGCAGCAGGCAGGCAGGCAGCCAGCCGAGCATCAGCTCCCACTGCTCTCTGGAGGTGCTGGGCTCTGGCAGCTGCCTGCAGAGCCTGTACAGCTAAGTCAGCTCACACCTAGTTTACTGTCAGCATGAGGCTGCTGCTAAGCAGCTCGTTGTGCCTACCTTCCTGGGAGGCTGTAGTGCAGTGGAGATGTCAGGCTGCTGTTGAGGAAAGGCAGGCAGAGTCCCATGCTCCCCTTACACAGCCCCAGGACACTGCTTCCAGAGACCTCCTGTTTTGTAGGGTTGTCATCTTTGGAAGCAGAGGTGCTGAAGAGACATAGATGAGCTGTTAGTGAAATACGTGGTATACTCTCACTCCTCCTTTTGGGCACTGTTGCTTCTCAGCATGTGGGTGGCTGACACGTGGCTTCTGATGGAGTGAGGCTCCAGAAGGCAGCTGGCGGTGACAGGCTGTGTTGTTGTGTGCAG
Seq C2 exon
GGAGAGAAGGGTCAGCCTGGGGAGCGTGGAGACAAAGGAAATCCAGGAGAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:28
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(29.0=60.6),PF0139113=Collagen=FE(38.1=100)
A:
NA
C2:
PF0139113=Collagen=FE(15.5=100),PF0139113=Collagen=FE(18.6=100),PF0139113=Collagen=PU(2.4=14.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
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]