GgaINT0045582 @ galGal3
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
NA
Coordinates
chr7:534885-535800:+
Coord C1 exon
chr7:534885-534938
Coord A exon
chr7:534939-535701
Coord C2 exon
chr7:535702-535800
Length
763 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
AAATGCTTTTTTCTCTGTAGGGT
3' ss Score
9.85
Exon sequences
Seq C1 exon
GGTTTGACAGGAAATCCAGGTGTTCAAGGCCCTGAAGGAAAACTTGGCCCCTTG
Seq A exon
GTAAGTGGCAGTTGGTCATTTCAGCTGATGCTACAGTTGTTTGGGGATCGCAACTCATTAAAATTACTTCTGTTAACCCCATTTTTCTTGTTTTTTGGAAGTCTGCCTTCTCTTTTAAGTATTAATCTTGGGTTTGTAACTCAAGATGTAGTATAATTAATATCCCTATACTTTAGTCTGTTTAGCAGCTGCTGCAGTATTTTCTAATTCCCTTTTTTGGGGGGAACAGTAAAATAATTATGCATAATGGATCAGTGTTAGTAAACTGATAGCATTTCTTTAGCTCCAGCTGTCTGTCTGTAGCTCTGTTTTAGATACACTTCGATAACTGTAGCACAAGGCTAGTATTATTCTATGTACTGAAACAGTATAAGATAACCAAGTACTTTACTCCCTGTTATATTCACCAACTTTGAAGTGAAAAATTCCAGCACCAAAATCCTTTTTAGGTAGGATTATTTGTATTACGTTGGAAAGCTGTTTATCTTCGCTGCTGAACTTTTTCCTCTGTGGCTCTTGAGAAACAGAGTGGGTTCAGTTACTGAGCCATGACACAATACGTATCCTATATTTTAATTTCATTTAAGACAATTATTTTGCTGAAATAAGAGATAGGAATATCTAGTTACTTCAAGGTTGTTTTCAAATTCAGTTAGAGCATTTTTGCACTAGTAGTGCCGGTAGTCATTTTCTAGAGATTAATAGGCTCACATAAATAAGTAATTTTTTTAATCTAATGCAGAAAATGCTTTTTTCTCTGTAG
Seq C2 exon
GGTGGCCCTGGAGAAGATGGACGTCCTGGTCCTGCAGGTTCGATAGGAATCAGAGGTCAGCCAGGCAGTATGGGCCTTTCTGGGCCAAAGGGTAGTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002509:ENSGALT00000003954:28
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=PU(9.6=44.4)
A:
NA
C2:
PF0139113=Collagen=FE(38.6=100)
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]