GgaINT0125314 @ galGal4
Intron Retention
Gene
ENSGALG00000002546 | COL5A1
Description
collagen alpha-1(V) chain precursor [Source:RefSeq peptide;Acc:NP_990121]
Coordinates
chr17:7550851-7551450:+
Coord C1 exon
chr17:7550851-7550958
Coord A exon
chr17:7550959-7551396
Coord C2 exon
chr17:7551397-7551450
Length
438 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTTGTGCTCTTATTTTTCAGGGT
3' ss Score
11.21
Exon sequences
Seq C1 exon
GGTCATCCAGGTTTAATTGGTCTTATTGGGCCGCCGGGTGAGCAGGGAGAAAAGGGTGACCGAGGTCTCCCGGGCCCCCAGGGCTCTGCAGGACCCAAGGGAGAGCAG
Seq A exon
GTAAGTGTTCCACGAGACCTACATTAAATATGCTTTTCAAGTGTGGGGCTTGCTGCCCTACAGCAGGTGTAGCATAGCAGTCGGTCAATCTCAGCATGAGAACGTTGCTAGTTTCTGAGTCCTATTTTCTATCTGAATGTGGTTTATTCCATGTATGAAATACAGTGAGGCTCCAACATGGTCCGTTTTAGCAGAAAGCGGATCCTTGAGAGTCGTCTGAAAAGAGCTGAGTATACTTGGAGAGATGGTAACACAAGTATGTGTCAGGAAGACTCACTTACAGAGCTGCTGTCTTGTCTGGATCATGCACACATTTAAAAACCCATTTGAGCTTCAAATCTTTATGTCCTCCAAAACCAGGTGGTCAGTGGTTAACTCCATAGTTGTGGGCCAGCATCGCTGCCTGCAGATCAGTATTGTTGTGCTCTTATTTTTCAG
Seq C2 exon
GGTATCACAGGTCCCTCTGGACCAATTGGACCCCCAGGGCCACCAGGATTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546:ENSGALT00000004020:57
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(33.3=100),PF0139113=Collagen=PU(7.9=13.9)
A:
NA
C2:
PF0139113=Collagen=PD(7.6=44.4),PF0139113=Collagen=FE(27.0=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]