GgaINT0125314 @ galGal3
Intron Retention
Gene
ENSGALG00000002546 | Q90689_CHICK
Description
NA
Coordinates
chr17:8232550-8233149:+
Coord C1 exon
chr17:8232550-8232657
Coord A exon
chr17:8232658-8233095
Coord C2 exon
chr17:8233096-8233149
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:ENSGALT00000039035:58
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=PD(46.8=80.6),PF0139113=Collagen=FE(49.3=100),PF0139113=Collagen=PU(7.9=13.9)
A:
NA
C2:
PF0139113=Collagen=PD(15.1=72.2),PF0139113=Collagen=FE(27.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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]