GgaINT0126277 @ galGal4
Intron Retention
Gene
ENSGALG00000001025 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:HGNC:4424]
Coordinates
chr17:9571034-9571502:+
Coord C1 exon
chr17:9571034-9571186
Coord A exon
chr17:9571187-9571406
Coord C2 exon
chr17:9571407-9571502
Length
220 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
AGGCAGTCTTTATTTTACAGAGC
3' ss Score
5.09
Exon sequences
Seq C1 exon
CAAATGGATGTAGAAAATGAAAGAAGTAAACTACAACAGCAGGTTTTAAGTGAGAAACATCAGTATGAACAGAAGATTTCTGAGCTAGAGTCTCAAATTGCTGCTCTTCAAACAGCTTGGGAATTTGATAAAACAGCTGCTCAGCACAAGATA
Seq A exon
GTAAGTACAGAAACTGTTGAGTGGGACACTCAGGTCTTCACAGAATGATTTTAACAAAGCTGATGGACCTTGCATGATGTCTGAATGTGCTTACTCAGAGTTCCCAGCATTGTAGTAGAAGATCTAATACTTTGAAAAGCTAAGTATGAATTGAATGTATTTGTTTATGCAAAGCATTGAAACACTTGTACTTAGTACTTAGGCAGTCTTTATTTTACAG
Seq C2 exon
AGCCAGCTGGAAAAGGAAAATGAAAATCTTAATGGAAGCAGAGAAGAGTATGAGAGTTCTTTAAAAAAGCAAGAATCTGTTCTGAACAAACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001025:ENSGALT00000001514:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.255 A=NA C2=0.781
Domain overlap (PFAM):
C1:
PF128082=Mto2_bdg=PU(62.8=52.9)
A:
NA
C2:
PF128082=Mto2_bdg=PD(32.6=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAGAAGTAAACTACAACAGCAGG
R:
AGTTTGTTCAGAACAGATTCTTGCT
Band lengths:
228-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]