AMCG00014370 (sox1a,LOC105893305,LOC106586732,LOC101064967,LOC107692134,LOC107718482)


Basic Information

Item Value
gene id AMCG00014370
gene name sox1a,LOC105893305,LOC106586732,LOC101064967,LOC107692134,LOC107718482
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030128.1
NCBI id CM030128.1
chromosome length 42883965
location 11392389 ~ 11393405 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00014370
ATGGAGACGGACTTGCACTCCCCAGGACCCCAGACTAATACGAATTCGGGGCAAACGGGTCCCAACAACGGGAGCAAGGCTAACCAAGACCGGGTAAAGAGACCGATGAACGCGTTCATGGTCTGGTCCCGGGGCCAGAGGCGAAAGATGGCTCAAGAAAACCCCAAGATGCACAACTCTGAGATCAGCAAGAGGCTGGGCGCGGAGTGGAAAGTCATGTCGGAGGCAGATAAAAGACCCTTTATTGACGAAGCCAAGAGGCTGAGAGCCATGCACATGAAAGAACACCCGGATTACAAGTATAGACCCCGGAGGAAGACCAAGACGCTGCTCAAGAAGGACAAATACTCCTTGGCCGGTGGGTTGCTTGCCGCAGGGGCCGGCAGCGGAGGGGGAGTGGGACTCGGGGTCGGGATGAGCCCGGCGGGGGTCGGACAGAGGCTGGAGAGTCCCGGGGGTCACGGTGGCACGGCCAACACTGGCTATGCGCACATGAATGGCTGGGCAAACGGCGCCTACTCGGGCCCAGTGGCAGCTGCTGCCGCGGCCGCAGCGATGATGCAGGAGGCGCAGCTCGCCTACAGCCAGCACCCGGGCAGCGGGGCGCACCACCACCAcgcacaccaccaccacccgcACAACCCGCAGCCCATGCACCGCTACGACATGACGGCGCTGCAGTACAGTCCCATCTCGAACTCGCAGGGCTACATGAGCGCCTCCCCGTCGGGCTATGGGGGCATCTCCTACACACAGCACCAGAACTCGAGTGTGGCTTCGTCGGGGGCTATCGGCACCCTGGGGTCGCTGGTGAAATCGGAGCCAAGTGTAAGCCCTCCCGTTACCACTCACTCCCGAGCTCCGTGTCCGGGGGACTTGAGAGAGATGATAAGCATGTATTTACCGACGGGAGAAGCAGGTGACCCGTCAGTCCAAAACAGACTTCATGCACTGCCTCAGCACTATCAGAGCACCACCACAGGGGTAAACGGAACAGTTCCACTGACACACATTTAA

Function

symbol description
sox1a Contributes to DNA-binding transcription factor activity. Acts upstream of or within positive regulation of DNA-binding transcription factor activity. Predicted to be located in nucleus. Predicted to be part of transcription regulator complex. Is expressed in several structures, including forebrain neural keel; lens placode; nervous system; neural plate; and solid lens vesicle. Orthologous to human SOX1 (SRY-box transcription factor 1).

NR:

description
transcription factor Sox-1a

GO:

id name namespace
GO:0007275 multicellular organism development biological_process
GO:0051091 positive regulation of DNA-binding transcription factor activity biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG:

id description
K09267 SOX1S; transcription factor SOX1/3/14/21 (SOX group B)

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00014370 True 1017 mRNA 0.61 1 11392389 11393405

Neighbor

gene id symbol gene type direction distance location
AMCG00014369 arhgef7a,LOC107668898,LOC107712280,LOC107569023 coding upstream 171615 11177961 ~ 11220774 (+)
AMCG00014361 NA coding upstream 263029 11125399 ~ 11129360 (+)
AMCG00014363 LOC106582132 coding upstream 286539 11097567 ~ 11105850 (+)
AMCG00014362 NA coding upstream 305787 11061595 ~ 11086602 (+)
AMCG00014355 NA coding upstream 591079 10766636 ~ 10801310 (+)
AMCG00014371 tubgcp3 coding downstream 147027 11540432 ~ 11561870 (+)
AMCG00014373 NA coding downstream 212563 11605968 ~ 11640460 (+)
AMCG00014376 cab39l,LOC103356757 coding downstream 250623 11644028 ~ 11659546 (+)
AMCG00014378 NA coding downstream 274751 11668156 ~ 11678181 (+)
AMCG00014377 NA coding downstream 295828 11689233 ~ 11696926 (+)
G69610 NA non-coding upstream 171115 11221070 ~ 11221274 (+)
G69556 NA non-coding upstream 430460 10959326 ~ 10961929 (+)
G69540 NA non-coding upstream 554159 10837204 ~ 10838230 (+)
G69499 NA non-coding upstream 898993 10493147 ~ 10493396 (+)
G69457 NA non-coding upstream 1168354 10223671 ~ 10224035 (+)
G69681 NA non-coding downstream 247678 11641083 ~ 11641452 (+)
G69722 NA non-coding downstream 325913 11719318 ~ 11722767 (+)
G69739 NA non-coding downstream 390460 11783865 ~ 11784083 (+)
G69778 NA non-coding downstream 1206699 12600104 ~ 12600313 (+)
G69833 NA non-coding downstream 1586854 12980259 ~ 12982434 (+)
AMCG00014345 NA other upstream 1240476 10147979 ~ 10151913 (+)
G69406 tgfbrap1,LOC102780916 other upstream 1383741 10003058 ~ 10008648 (+)
AMCG00014272 tbc1d23 other upstream 3909829 7464503 ~ 7482560 (+)
G68848 NA other upstream 3975795 7413640 ~ 7416594 (+)
G68830 NA other upstream 4042922 7346195 ~ 7349467 (+)
AMCG00014407 LOC107725344 other downstream 1852904 13246309 ~ 13251732 (+)
AMCG00014423 pou2f1b,LOC107748141 other downstream 2261833 13655238 ~ 13689188 (+)
AMCG00014456 NA other downstream 2796159 14189564 ~ 14205014 (+)
AMCG00014461 NA other downstream 2909042 14302447 ~ 14356868 (+)
AMCG00014470 NA other downstream 3828509 15221914 ~ 15242333 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_000580 sox1b coding NC_007112.7 CM002885.2 46194333 ~ 46196107 (+)
grasscarp (Ctenopharyngodon idella) CI01000119_02031570_02032574 SOX1A, SOX1B, SOX1 coding CI01000119 null 2030668 ~ 2032731 (-)
rainbow trout (Oncorhynchus mykiss) G576963 LOC106574593 non-coding NC_048571.1 CM023225.2 13839239 ~ 13873273 (+)