GgaINT0045560 @ galGal3
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
NA
Coordinates
chr7:507431-508279:+
Coord C1 exon
chr7:507431-507463
Coord A exon
chr7:507464-508246
Coord C2 exon
chr7:508247-508279
Length
783 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
AAATATATTACTGTCTTTAGGTT
3' ss Score
6.42
Exon sequences
Seq C1 exon
GGGCAAAAAGGAGAACCTGGAATAGTGCCACCT
Seq A exon
GTGAGTCCATTTTTTTCTTCATTTATCAGAGCTCCATAGAAGTGTATATTTCAGTACTTCAAAAAAAAAAGTTCCAGCTGTTAAACAAATGCTACAAAAACATATAGGCTGATACTGAAAGGAATTGAATGAATTACACTGGTTGACATAAGTGAAATTGTACAAGCCTGTCAATTGCATTTTGAGGAAAACTAATCTTAGAGTTAAATTTGTCAATCTTATGTTTTACTTCAGTTCTGTTTAGGTATAGTGATACATCAGTGTTTGGAAAATTCGTTAAAAAAATAGAGAACTGGTGCTAAAAATTCTCCCTTTCCACCTTTACCATTATCCTTTTCGAGAATCACAGAACATTTAGATTGGGAAAGTCCTGTAAGATCATCTGAAGTCTCTCATTAAACCATGTCCCTAAGTGCTGCACACACGTCTGTTAAATCCCTCCAGGAATGATGGCAGCCACTTCCCAGCCTGTTGGATGGAGACAAATTAAAGGACTAGATAAACTTAGACTATCTCATAGTCATTTATTTATTTAATCTTTTTTTTTTTTTTTTGCTTTTTACAAAAAAATAGCAACAATGCTTCCAAAGACTTTATATCTTATAGAAATTCAGCAAAAAGGAAAAAGAGAGGCAGTAAAAAATACTTTATTATCAAAAAACCTTAGAACTTGCTCAGTATCTTAATTCTCTCTATCACTATTTATTTTTCAAGAAATATTTTTCTGTAACAAATATAAGCATAATATTGTATGTTAACTTATAAATATATTACTGTCTTTAG
Seq C2 exon
GTTTCAGGAATACGAGGCCGCCCAGGGCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002509:ENSGALT00000003954:6
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(22.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(22.7=100),PF0139113=Collagen=PU(14.1=81.8)
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]