GgaINT0125716 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:8579361-8580161:+
Coord C1 exon
chr17:8579361-8579434
Coord A exon
chr17:8579435-8580049
Coord C2 exon
chr17:8580050-8580161
Length
615 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TTTTTTTACCTTATTTTAAGGAT
3' ss Score
9.23
Exon sequences
Seq C1 exon
CTGAAAGCAGAGAACGCCGCGTTGCGGAGGAGGATCCGCGAGCTGCAGGAGATCTCTGGGGCTCAAACAGACGT
Seq A exon
GTGAGTGAGGCACGGCGTGGGGGGGGGGAGGTGAAAAGGAGTGGTGTTTGGGAGCTCCCCGGAAAGAGTGCAAAGCGTGGAAGAAGTGAGCCGAACTCTCTCCTGTCTGTTAAAAAGCTTTATCAGATCTGCTTTTTCTTATTGGAAAAGGCTTGGTAAGTGCCCAGTGAGGTGATGCCTTGTGAGTGTATTGAGGCCTCATGCAGCTGAAGTTGTGAGGGTAATGGCAAGGCTCCACAGGAGGCAGTTAACTTTGGTGGGTGATTAACTTGACTTTGGGAGGCATTGAATTCCTGAGGCTCACCAACCCAGTGACTGATCCATGGTAGCGATTTCTCTTTGCTGCTCCCGTGGCGGTGGGTGACTGTTTCAGAACGCTCCAGACTGACTGAACAGACACGCTTTCTGTACAGTTGTGCTGTGTTTAGCTGTTCCCATTAGGGCTAATGGATGACGAATGCAGAAAGCCCTGGAGCTGCAGCCTACAAAGGCCGTTCTGTGAGATGCCTTAATTTTTTATTCCATGAAAGGATAGAGTTTCTCAGTTCTTCTCCTGGAGTCTTCTTGTGGTTATTTTACCAAGAAAAGTACTATTTTTTTTTACCTTATTTTAAG
Seq C2 exon
GATGAAAAAGCTCGAAAGAAAGCTCGAGGAAAACAAAATCAAAGAAGAGAAGGAAGCTCGGGACTTGGAAGCAATGGTGCAGCACGTGGAGCAGAATCTCCAGCTGATGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001921:ENSGALT00000002974:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.658
Domain overlap (PFAM):
C1:
PF0076914=ERM=FE(14.0=100),PF154191=LNP1=FE(17.0=100),PF0026115=Tropomyosin=FE(21.2=100)
A:
NA
C2:
PF0076914=ERM=FE(21.5=100),PF154191=LNP1=FE(26.2=100),PF0026115=Tropomyosin=FE(32.7=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:
CTGAAAGCAGAGAACGCCGC
R:
GTCATCAGCTGGAGATTCTGCT
Band lengths:
185-800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]