MmuINT0072142 @ mm9
Intron Retention
Gene
ENSMUSG00000026754 | Golga1
Description
golgi autoantigen, golgin subfamily a, 1 [Source:MGI Symbol;Acc:MGI:1924149]
Coordinates
chr2:38918762-38920243:-
Coord C1 exon
chr2:38920195-38920243
Coord A exon
chr2:38919025-38920194
Coord C2 exon
chr2:38918762-38919024
Length
1170 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTCTTTCTTCTGATTTATAGATC
3' ss Score
8.73
Exon sequences
Seq C1 exon
GGCAGTGACTTTGACCTCCATACTCTTTTAAATATAGTAGATAAGACAG
Seq A exon
GTGAGTACAGTGGTTTACAGATATTGGGGGTAAAGTTTTGAAGGATTTCATAGGCTTAATGGCTAACCTGAAGTGGTAAGGCGTCATCTGTCATCTTACAACAGAGTGTATCCTGCACAGACGTGAAAAGATAAGGTTGAAACAGAACAGTAGGAGTTTGCTTTATTTTGTTTTGTTTTGGTTTTTGTTTGGTTTTTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGCTGTCTTCGAACTCTCTCTGTAAACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGGGCTGGGATTAAAGTCGTGAGCCACCACCACCCGGCCTGTTTTGTTTTTGAGACAAGATCTCACTATGCAGCCTTCCCTGGCTGACCTGGGGCTGTGTAGACTAGACTTGCCTTGAACTCACAGAGATCCTTTTGCCTCTGCACCACCATACCTGGCCCAGTAATGTTTTATATACCATTGAAGGAAAGAAATTTTGAATCTCATGTTAACTATCATATGGGAAGAAATTGTGGCTAGATGTAATATTATCAAGCACAAAGAAAATTAGACATTTCCACATGGGTGAGAAAAGTTAAAGAGCATCTGATAACTATAGTTAGTCTGGGTTCTTGGTCACTTTTTTCTATGTTGTAACTTTTCCCTCCTAGGAGGAAGCACCTGATTAAAAACCAGAGATTGAGTTGCATATTTTGTATCTTTTGACTTAAGGAAAAAAAAACACTAAATTCTTATTAAATATATTATTAGAAGAAAGATTTGAAACATTAAGTCATAATTACATGTTGTTGACCTGGAAATTTTTACATGTGCCATTGCTAAAACAAAAGGTTGAGGTTGATGAGTCAGCTCTGTGTCCAGACACTAGCCCTATATACTTAGCCATACAGTCCTGGCAGGTTATTCTGCCTCCTTCAGACCAGATGCCCTTATTCATACATGTAAGTGAAGCACCTGAGTGTTTCTAAATGTTTAATAATTATGTTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTTATTATGAAACCACTTTTGAAGCCTGAATCTGACAGCTATTTAACTTGGAGCTATCTCTTTCTTCTGATTTATAG
Seq C2 exon
ATCTTGTGTTGCCAAAATTCTTTGGCCCACATTTAAGTGGGATGCAGCTAGCCTGGAGGTGTGAATGAATTTCATTCACTGAGAAGTCTAGGGGTTAGTTAACCCTGAAAGATATCCACACAGCAAAAATGTTTGCAAAACTAAAGAAGAAAATTGCAGAAGAGACTGCTGTTGCTCAGAGACCAGGCGGCACAACAAGGATCCCACGCTCTGTGAGCAAGGAGTCTGTGGCCTCCATGGGAGCTGACTCTGGAGATGATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026754-Golga1:NM_029793:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.778
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGTGACTTTGACCTCCAT
R:
AATCATCTCCAGAGTCAGCTCCC
Band lengths:
310-1480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: