HsaINT0070363 @ hg19
Intron Retention
Gene
ENSG00000136935 | GOLGA1
Description
golgin A1 [Source:HGNC Symbol;Acc:4424]
Coordinates
chr9:127670656-127674305:-
Coord C1 exon
chr9:127674180-127674305
Coord A exon
chr9:127670752-127674179
Coord C2 exon
chr9:127670656-127670751
Length
3428 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
ACTCTTCTTTCAACTTACAGAAA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTCACTGCTGAAACTCAAGAGAAAGAAGACGTTATCACACATTTGCAAGAGAAGGTTGCATCCTTGGAGAAGAGACTAGAACAGAACTTATCAGGAGAAGAACACTTGCAAGAACTCCTGAAAGAG
Seq A exon
GTAACTTCTGTTCTCTTTGGGCTGGCTGGTGTTGGAAAGGCAGGGTTGATTCTGGTGACTTCACAATTCCTAGAGTTTCAGAGCTGTAGGGCCAGCAAACAGCATGGTAACAAAAGAAGTGTCTCCAACTTTGGCTTGTCCTGCTTACATCAGAAAGAGCCTTATGTCCCCTGTGGGTGACATGCTTTTCTCAGGGAAAGGGAGAGCTGTATTCAGAGATACATACAAACGGATAGCATCTCATCACCAATAAACCACACCTAGTGATTTCCGCCACTTGGGCTGCCTTGTCTTTCTGCACTGCCCTCTTCCCCACCATTTTGTACTCTGCAGTGGCCAAGGTAAATAGCTACATCTGCCCCTTGGCAAAAGCAAGAATTACCTTGGGCAGCATTCTCTCCTTCCCAAGGGAGGCTGTTGTGCAGACTGGCCTCTTCCCCAGTGGTGCAAGGGAACTTTCTCATCAGGCTGAGCTCATTGTCTGCACACATTCTGCTCTTCCCTCTCTTTCTGTTCCAGTGATTGGCCACACTGTGACAAAGGTGACAAAGCCCAGGTCATGAGGCTCCTAGATTAGACCCTCCCTTTCTTTCTTCAGTCAGTTTCAACTAAATACCTCCATCTCCAGTGCCACTGGTTGTACTTCAGGGTTTCCAGCAAATCTAGCCTAGTCTATGTTAGAAGTCTCCAGATTGGCCTACCCAGCATCAGTCTCTCTTCCTTCACTCTCTGACACAGTCTCCCACGCTCACTGCCAAACTGATCCTCCTAATCAGCACTGGTGACCATATCACTCTCTTAAACATCTTCTACAATTCCCTTCAACAGTCTACAGGAAGTGTAATGTGGGTTCTAGGGAATAAATTGATTTCTAGAATCAGAATGTCCATGCTTGCATTTTGCCTCTTCTGCTTACCAGCTTTGACTTGGAGCAGCAGTTCCCAACCGTTTTGGCACCAGGGACTGGTTTCGTGGAAGACAGTTTTTCCACAGATGGGGTCAGGTTGGGTCGGGTGAGGGGGTGGTTTCAGAATAAAACTGTTCCACCTCAGATCATCATCGTCCCTAGATTCTCATAAGGAGTGTGCAACCTGGATCCCTCACTTGCACAGTTCACAATAGGGTTCATGCTCCTATGAAAATCTAACACCACCACTGATGTGACTGGAGGCAGATCTTAGGTGGTAGTGCTTACTCACCACTCACCTCCTGCTGTGCGGCCTGGTTCCTAACAGACTGCAAGGTCTGTGGCCCAAGGGTTGGGGACCCCTGACTTAGAGCAAGTAATTTAATCTCTTTGTGTTTGCTTCCTCCCCAATAAAATTGGTTTTATTATACTATTAAACTCAGAATTGTTGTTAGGGTTAAATAAGTTACAATATGTGAAGTGCTTAGAATGATAACCGGAACAGAGTAGGGTCTCAATGTATGTCAGCTGTAAACATGATCAATATTATTATTGTGCCATCATCATTATTATAATGTTTAATGTGCATAGAAATTACTTGGGAAGTTTGTTTAAAGTATATATCTCTAGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGTAGCCGAGGCGGGCAGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGCAAAACCCCGCCTCTATTAAAAATACAAAAATTAGGCCAGGCGCGGTGGCTCACACCTATAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACAAGATCAGGAGATCGAGACCATCCTGGCCAACATGGTGAAAGCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGCACATGCCTGTAGTCCCAAGCTACTCCGGAGGCTGAGGGAGGAGAATTGCTTGAACCTGGGAGGTTGCAGTGAGCTGAGATCATGCCACTGCACTCCTGCCTGGTGACAGAGCGAGACTCTGTCTCAAAAAAATAAATAAATAAATAAATTAGCTGGGCATGGTGGCGGGTGCCTGTAATTCCAGCTACTCAGGAGGCTGAAGCAAGAGAATCACTTGAACCCAGGAGGCGGAGGTTGCAGTGAGCCAAGATCGCACCACTACTTTCCAGCCTGAGCGACAAGAGTGAAATTCCATCTCAAAAATAATAAATAAGTAAATAAAGTATATATCTCTGGCCCTACCCTCAGAAATTCTGATTTCCTTAGGCTTGGAGCAAGGCCTCAAATCTGTGCAACTAGCTGAGATTAACAACTATCTCAGTAACAGCTATCTCAGCTAAGTCTACATTTCTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTTGCCCAGGCTAGAGTGCAGTGGCGTGATCTCGGCTCACTGCAACCTCTGCTTCCCGGGGTTCAAGTGATTTTCCTGCCTCAGCATCCCGAGTAGCTGGGACTACAGGTGCACACCACCACATCCAGCTAATTTTTTTGTATTTTTAGTAGAGACAGGGCTTCACCATGTTGGTCAGGCTGGTCTCGAACTTCTGACCTCGTGATCTGTCCACGTCGGCTTCCCAAAGTGCTGGGATTACAGGCGTGAACCACCGCTCCCAGCCCCATTTTTTTTTTTAAGACAGAGTCTCACTCTGTCACCCAGGCTGGAGTTCAGTGGTACAATCTCTGCTCACTGCAACTCCGCTTCCTGGGTTCAAGTAATTCTCCTGCCTCAACCTCCCAAGTAGCTGGGATTACAGGTACCCACCACCACATCCAGCTAATTTTTAAAATATTTTTAGTAGAGATGGGATTTCACCACGTTAGCCAGGCTGGTCTCGAACTCCTGACCTAAAGTGATCTGCCTGCCTCAGCCTCCCAAAGTTCTGGGATTACAGGTGTGAGCCACCACACCCGGCCTAGAATTTCTACTTTGAAAAATGTTGCTTACAGAATCAAGTTCTAACTCCTTTTTGCAACATTCAAAAGCTTCTCATGAGCTGGCCCTTTTGCCTATCTTTCTAGTCTTGTTTTTTGACCTAAACCCATCATCATTTTGGCTTCTGAGGAGTAGTAGTTCCCTCAACGTAGCAGGCTGTTCACATAGCCGTTGGTCATCCCCCTGCCTGGGAGGCTCCCTGAACCCTAACGACTTTGTGAGTTCTAAAGCTGCCTACCTGCCCTGTGGCAGGGAGTATCTCCCACCCTGTGCTTCTTCCTCTTTGTGGACACTTACTGTACTCTATTGTGTAATTTTTTATTAGTCTTTTGTTCCAGCCTCAAGGTCAAGGGACTATTTCAAATTTATCTGTGTGTACTTTATGATATGTGAATTATTTCTCAATTAGCTGAATTATTAAAAATGTATTCATGTCTCTTGTGCCTAGCACAAGTCACAATATGTTGTAGATAATCTGTAAATATTTATTCAACTGAGGAATGATAGTCTTCTTTTACTCTTCTTTCAACTTACAG
Seq C2 exon
AAAACACTTGCTGAGCAGAATTTGGAGGATACCAGACAACAGCTCTTGGCAGCCAGAAGCAGCCAGGCTAAGGCCATTAACACCCTGGAGACTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136935-GOLGA1:NM_002077:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.510 A=NA C2=0.239
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=FE(33.3=100),PF078886=CALCOCO1=FE(28.1=100),PF0157614=Myosin_tail_1=FE(29.3=100),PF083176=Spc7=FE(27.3=100),PF048597=DUF641=PD(38.0=83.3),PF045827=Reo_sigmaC=FE(27.5=100),PF0192313=Cob_adeno_trans=FE(35.0=100)
A:
NA
C2:
PF104734=CENP-F_leu_zip=PD(18.7=71.9),PF078886=CALCOCO1=FE(21.2=100),PF0157614=Myosin_tail_1=FE(22.1=100),PF083176=Spc7=FE(20.7=100),PF045827=Reo_sigmaC=FE(20.8=100),PF0192313=Cob_adeno_trans=FE(26.5=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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]
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)