HsaINT0070375 @ hg19
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:4424]
Coordinates
chr9:127640573-127643536:-
Coord C1 exon
chr9:127643450-127643536
Coord A exon
chr9:127642890-127643449
Coord C2 exon
chr9:127640573-127642889
Length
560 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CTTTTCTGTTTCAAATGCAGATG
3' ss Score
10.77
Exon sequences
Seq C1 exon
GCTTTTCATCTTATAAAAGCTGTGTCAGTGTTGCTGAACTTTTCCCAAGAGGAGGAGAACATGCTCAAGGAAACTCTGGAATATAAG
Seq A exon
GTAGGGTTCTCTGGTCTACTGTTCCAGCTTCCAAGATACGTTGTCAGTTATCCCAGCAGTAGCAGTGTAAGACCCCTTAGACCCACACCCGAGTGTAGGCACCAGCACAGCTGCATGATCAGCTTGGCTGCTTTTGGATGAACTTGATCCAAGCACTTTTTAGCGATGACATCCTTTGTGCCCAAATGTCTGTGCTGTACTTGACCAACAGGCCACGTATTTTTCAAAGCATTTTCATTGATAGCGCTTTATCGAGAGCCCCAGGTCTGGCTCGGCACTCAAATTCCAAAAGCGTCTGCATAAATGCTCTAATAGGAAAAAATACCTGCAGTTCCACTACCTTGTTCCTGTCAACTCAGTGTTTTTCTCTCATTTCCCTCCTGTACTGAGCACGGGCCTGCAGACTGGTTACTGGCACCATCTTCTTGCTCTGCTCAGAGCCAGAGGCAGGATGTGTGGGGGGCAGGAGTGACAGGCTCACGGGAGGGGAGGGGCGGTTCAGTTTCCCTGGCACCAAGTCCTGATTTGCATCTCAGAAGCCTTTTCTGTTTCAAATGCAG
Seq C2 exon
ATGTCATGGTTTGGGTCCAAACCAGCTCCCAAGGGCAGCATCCGGCCGTCTATCTCAAACCCTCGGATACCATGGTCCTAGAGGGGACTACCCAAGGATGGAGCTCCGTGGGTTGACACTTTTTCTGTGAAAAGAACACTGACACACCAGTCTGGGTGGGTTTTTAATCACTGTAACTGCAGTATTTTGTACAAGTGTCTAAACATTGTTTACAAGACTAAGGCCCACTTCCCTGCAGGCTGACCTGAACCTCAGGGGGTAGCTGATCCTGTCATTCTGGTCACCAAACAGGAGGGTCCTGGCACTACCCAGATTTCCACAGTGCTGCTAATATCCCAGCTCCAGCCAGCACCCCATCTGCACCTGAATCCTCTAACTTCACGGTAGCACTTACAGCTGAAGCCATCAGCATCTGGCAGGCACACCTGAGTCACCATGTAGCGCTGCTACTGGAGGTAGAGACGGCCCTTTGAGATGGTGCCCAGCAGGCCAAACCCACCTGCCTCTGCCAGGAACAGCCAACTCCATGGGAACTCTATGGGAGTGGCTTTTAAAAATTCAGATGAGTTAGAAGCTTTTTATCCCTTCCTCTCAAGAAAATATTCTTTCACCCTGTCTCTCAAACCACCTAGAACTTTAGAGGATCCATCTTTAAGGGTCGGTGTGGATGAATGAGAAAATGCACCTTTCTGACAGTATCTCCACTTTACTTAAGAAAACTAGCAAATATATGAAAAGACCCTTAGTACCAAATACACTCAATTGCCTTTTTAATGAATGTACTTGTCTTGGATAGGTTGCTGGTAAACCATTTTAAACTATTTTTTATAGCTGAAGTTCTTCACTACTATAAACATGTCTTCTGTACTATAAAATCCATTTAACTGGTGTTCTTAAAATCAGAGCGTCCAGAGGAAATTCTTCCTAAAACTAGGATTCCTGTTCCTTTGTCTTCTCACTCGCACTCTGGCACTGCTCCCTCTGAAGTGCAGTGGGATCTCGTGTGCTTTGTCTTGATTCTGTGCTGCGCTGCCGCTGGGCGATGCAGACCACCTGTCTTCTACTGAAGGACAGTCCGCTGTCTCCAGTGGGGGCAGCAGCTGTCCCCCAGCCTCGATGGAGACACTGGGGCAGTCTGCCTTGTCTGTGGAGCTGCTCTCTCTCCCTCATCCCACCCCAAATACTTAAAATGACACTACACCCAGACGGCGCCCAGCTGGCTGCAGCACTTGTAGCATGCACATGACTCTGGTAGTAACCAACAAAAACTTGTTTTATGGATTCCTCGTTTACTGAGGAAAGGGAACATGCTGGTTCTGGAAAAGCCACAATATTGAATCTAAAAGGAAACCGTTTATTGTTTGATGAAAGTTTCACTGGTTAAATAAAAAACTAAATTAATAACTGGAGCCTCTAAATTTATTATCCATTATCCAGTGATGGAAAGTTGTATTTCTCAATCATGCTTAGGGCCAAAATAGGTATATAAAATGTGTCACAGAAAAACACGCATTTGCAACGTTAACCTAACGAAATTTCCATGAAGAACCAAGTCAGGGCAGCATCTCCTTAGTCCCAGCTCAGGCTCTCTGCCTTCCAGAGGCCGCTTCTCCAGTGACTAACCTCCTCCTCTGGCTCCTCCTTGCAGACAGTTATCCCTTGTTTAGAACACGAATTTCCATTTACCTGGTGGGAACACGAAACAGGAGTCTCTTCTGTTCTGCAAGTTTGATGGGTAAGAGGTAGCCTTTTTTCAAAGTAGGATTTCCTTTTTCAACTGTTCCAGGAAAGAATCTCTAAGACTGGGTAGCTCACAGCCAGCCAAAGGCAGCTACATTTCCACAGAAGCCCATCCGCTGCCTCCGTGGCTTCTCCAGCCATTGAACTGGTCCCACACGCACCCCAGGCCCCACTCCTCGGCAGTTTCAGGTGTAGCTGTGGGGCCCGTTCCTAGGTCTGTACTCACTTTAGGGAGGCTTCACTGACTAGGCTTTCCTCCTGCATGTTGAATTTCCTTCAGCTTTAAGAGGAAGAGTGGAATAAATATTCTAAGTGATTTAATGCACTTTGACTTGTATAAAACTTTCTGTGTTAGCGACGGTATCTATAGCCCTTTATACGAGCGATGGATCTTGAGCTCTCCTTCCATGTTGTAAATAGGGATTGTATTCTTGAAAACTGCTGTAGCAAATTCATCTGTGGTGCAATACACTTTTTGATTAAAGCTCTTCAATCCAGATGCAACTACAATGGATTTTACTAGTTTGGTGTGTCAGTATTTCTTTGACTCATTAAATCTGGTATTTTGTGTCTCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935-GOLGA1:NM_002077:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.192
Domain overlap (PFAM):
C1:
PF0146515=GRIP=PD(48.9=75.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCTGTGTCAGTGTTGCTG
R:
ATGACAGGATCAGCTACCCCC
Band lengths:
347-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)