GgaINT0126283 @ galGal3
Intron Retention
Gene
ENSGALG00000001025 | GOLGA1
Description
NA
Coordinates
chr17:10296472-10297532:+
Coord C1 exon
chr17:10296472-10296531
Coord A exon
chr17:10296532-10297361
Coord C2 exon
chr17:10297362-10297532
Length
830 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CCCTTCTCTTTTTCTTTTAGAAA
3' ss Score
11.81
Exon sequences
Seq C1 exon
ATGATAAAGCAGCTACAACAAAGAATGGCAGAACTGAAAAAAACTCTCCAGAAGGAGTTG
Seq A exon
GTAAGAGTTCTGTTTCTCAGTCTCTCCAGCTGGCACTTGCTGAAAGTTACTTACAGTAGAAATTCCAAAGACTTGATTGCAAGCTACAGTTTGTTTGTTTACTAGGAATGCTCGCAGTTTCCTTGTGATTGCAGATAAATCTGTGAGCCCTTAATTTAAGGAAATATGTCATTCTGGGTCAGTATTTACTGAATAGATGGTGTGTTGGGTAGCCATCGCTATTCAGATACTGCAACACTGAATTTTAGCTATGGACGTGTATTTGGTAGTGTCTGGTATCTAAATGTTTCCATATATTGGATGACTGAGATTTGTGGTTGCTATTCAGCTGTCATTCAGCTAAAATTTCTCAGGGAGTAATGTCAGCCACAGGAGAAAGCTGCTCTTAAAATAGTTTTCCTCTCCAAGAAAAAGTGCTTGTATTTTAAACATTTTAAAAGAGGGTTTAAAATATTCAAAAGCTGTGATTTTTTTTGTTGTTGTTGTTCTGAACTTGAGAATTGCATTCTGTGCATATGAAAAGCACAGAGCAGATGGATGGTGAAACAAAAATGATCACAGATGTCAGTTTCTAGCCTAGAGCCAATTCTGCTGGTTTGGGTCATACAGACATAACTCTAACAGCAACCTGGTTCTCTCCTAGAGTCTGGGGAGATGTAGAGATATGCTCCTCTGCTGTCATCCCCTGAAGGATGAGAAGCTTGTCCTACTGATGCCCAGGTTGTACCCATGTTGTGGGTACAAATGCTCTATGTTAGGTATCTCAGACTCAGATTTTCTCCCAGCATCAAAGTGACACAACCTGTAATGCCCTTCTCTTTTTCTTTTAG
Seq C2 exon
AAAATAAGGCCGGACAGTGAAGTACCTGAACTACGTGAAAAAACAAATTCTGAAGTGCCTAATGCTTCTGTGACTGTCACAAACAACTCGGATTTAAATGACTCAAGGGAGATAAACTTTGAGTACCTTAAACATGTTGTACTAAAATTCATGTCCTGCCGGGAGTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001025:ENSGALT00000001514:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.509
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146515=GRIP=PU(46.7=36.8)
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:
TGATAAAGCAGCTACAACAAAGAA
R:
CTCAGACTCCCGGCAGGAC
Band lengths:
230-1060
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]