GgaINT0043067 @ galGal4
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10617046-10617640:+
Coord C1 exon
chr6:10617046-10617090
Coord A exon
chr6:10617091-10617595
Coord C2 exon
chr6:10617596-10617640
Length
505 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
CTAACAGCATCTTGTTACAGGGA
3' ss Score
4.78
Exon sequences
Seq C1 exon
GGAGAAGCTGGTGACGTTGGTGCTGCAGGATCACGGGGGGAAAAG
Seq A exon
GTACAGAGAGCTTGTGGGCAGCCCAGCTCTGGGTTTGGTATCGCAAAAAATATTCCTGTGTGTTAAAAACTTAGCAGAAATGAAGCATTTTAAAACTGAGCTGTTTAGGGTGAAGGTGAAAAGCATAAGGTTAAGCAGAGGAACAGACTTGGCCACCACTTGCTTAGTGACTGTACCGATGTTAACGGAGCAGGCTGACCTGATCCCTCAGAACCAGCTCTTCCAGCAGCAGCTGCTGGTGAAGCACACTGAATCTCTGGTGTGCCAGAGAGTATGTCAAGCTGGCCTGGGGAACAGGTGTACCTCCAGGTATTTTGCAAGCGTACTTTCTCAGAAGAAAAACCTACAGAGCTCCTTTGTGGTGTTACTGAATTATTGCAGGTTACGTGCAAGGCTTTCTATTCCAACCTAGTTGGAAGCTGTTTTAGAGGACTTGTAGAGTGCAGTGGTTGCTGGAGTTCAAGCAGCTGAAGTGATGGGTATTGCTAACAGCATCTTGTTACAG
Seq C2 exon
GGAGAACGTGGTGCACCGGGAGAGCAGGGACCCATGGGGCCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:24
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(23.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]