AMCG00007798 (rora,LOC103141220,LOC106561150)


Basic Information

Item Value
gene id AMCG00007798
gene name rora,LOC103141220,LOC106561150
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030123.1
NCBI id CM030123.1
chromosome length 53548854
location 30388193 ~ 30401103 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00007798
tttttgttttattcccctTTACCAGCTCAAATCGAAATTATTCCTTGCAAGATCTGTGGAGATAAATCATCAGGAATCCATTATGGTGTTATAACGTGCGAAGGCTGCAAGGGCTTCTTCAGGCGAAGTCAGCAAAGCAACGCCACCTACTCTTGTCCCCGCCAGAAGAACTGTCTGATCGACCGGACCAGCCGCAACCGCTGTCAGCACTGCCGGCTGCAGAAGTGTCTGGCGGTGGGCATGTCCCGGGATGCGGTGAAGTTTGGCAGGATGTCAAAGAAGCAAAGGGACAGCCTGTATGCCGAGGTACAGAAGCACCggatgcagcagcagcagcgagaCCACCAGCAGCAGCCGGGTGAAGCGGAGCCACTCACGCCCACGTACAGCCTCTCCACCAATGGGCTCACAGAGCTGCACGACGACCTCAGCAGCTACATTGACGGCCACACGCCAGATGGCAGCAAAGCCGACTCAGCCGTGAGCAGCTTCTACCTGGACATCCAGCCCTCGCCCGACCAGTCTGGACTTGACATCAACGGCATCAAACCAGAGCCTATCTGCGACTTCACGCCCGGCTCGGGGTTCTTCCCATACTGCTCCTTCACAAATGGGGAGACCTCCCCCACAGTGTCCATGGCAGAGCTAGAACATCTGGCACAGAACATCTCGAAGTCTCATATGGAAACATGTCAGTACTTAAGAGAAGAACTACAGCAGATGACCTGGCAGGCTTATCTGCAGGAAGAAGTGGAAAACTACCAGAGCAAGCCCCGAGAGGTCATGTGGCAGCTTTGTGCAATCAAAATAACAGAGGCTATTCAGTATGTGGTTGAGTTTGCCAAACGCATTGATGGATTCATGGAGCTGTGTCAGAATGATCAAATAGTGCTTCTTAAAGCAGGTTCTTTGGAGGTTGTGTTTGTGAGAATGTGCCGTGCCTTTGACTCTCAGAACAACACAGTGTATTTTGATGGAAAGTATGCTGGTCCAGAGGTGTTTAAATCATTAGGCTGTGATGACTTGATCAGCTCTGTGTTTGAATTTGGAAAAAACCTGTGTTCTATGCACCTGTCTGAGGATGAGATTGCATTGTTCTCAGCGTTTGTATTGATGTCTGCAGATCGTTCTTGGCTTCAAGAAAAGGTGAAAGTGGAGAAGCTTCAACAGAAAATACAGCTGGCTCTGCAGCACGTTCTGCAGAAGAACCACAGAGAAGATGGGATATTAACAAAGttGATATGCAAAGTGTCTACACTGCGAGCATTGTGCAGCAGGCATACAGAGAAGTTGACGGCTTTCAAAGCAATATACCCGGACATTGTGCGCGCCCACTTTCCTCCCTTATATAAGGAGCTTTTCGGCTCGGACTTCGAGCAGTCGATGCCTGTTGATGGGTAAAAGCCTCCCACTCGTGTGAACGCTGTCTGGAATGTTGGAAGAACCAGAGCTGAATGAATCTGAGACACTTTATGGTGCCCTGCACAAACCAGGAGAGCCGACACGCTGCACAATTTGgggggattttttattttattttccattttgtggatgggggtgggggtgggatcCAAAGCCAATGGGAAAGgagaggtaaaacaaaaatcaagtaAGACTTCTTTATTTAACACTGAACTTGGCCTTTTCATGCATATCGTTTACATCTCGGCATACCTTGTCCAACTGTGAACATTTTCAAACCAGATATTGAATGGAACTGATACAGAATTGGCAAGATGTTTGtatataggaaataaaaataacaatagggATACTGGTTTATTCATTCCCAATCCCATgaaacaatgtcatttttagTAGATTAATGTCAGTACTTATATCCATGTTCCATTGCCTTAGCACTTCTCAAGCCTTTCCCTCagggttatatatttttttctttttggtcaaTGAAGTTGAAATAACTGCAGCTACTGGCTATCTGTTTCACTCTTGATAGAGGACTCTGTTTAAAAGCTCACTTCAATACAGACCTTTGAAAGCAATGCACGATTCACCTAGTCCACTGAATCAGGGTTGATTTGGCACAATCATGTTTGGTTTTCgtatttattctattattttgattgttattCACTCCAGAATTCATTGAGAAAATGGACCCGAAGGCCTTTCCCACATGGGGATGACTCTTGGGCATGTCTACAGAAgccaataaagaaataattatgttttggaAACTATATGCATATATTGGTCAAgttcaaaacctttttttattattattatttttttattttattttattttgttgtatgcaGTGCTCGGAATGCAAACTCAAAATGATTCAGAGAGTTGAGAGAGCACTGTGGTGTGGAGTCCGCCTGTCGGCGATCGTGATATAAACTGCACCTTTCTATGGACAATCGTCTAAATGAAATGTAGAATTCTGGTAATTCTAGTTTAAACATAAAGACTTTAGCTGTCAAAGACTCCATCCTCCATGGTTGCATAGTGAAATCATGTAAGGCCATCTGCTATTAATCCTTCACTGGGGAGGTGTCCTTGTAAAACTGAGGGTACCAACAGAAAAAAAGGGTCCATTACACCAGTTTTATAATGTACTACAGGGTATACAGTCATAAGTACTTACTATacagaaaaaagtaatgtttatagattctattttaaataacatgtatGATATTAGTAGTTAGAATATTCTTTATTGTTGAATTGATAAGGCACTTTTATTTGcacctttcttttatttaagaCTTGTGTATTACCTAGTGATGTGTTGCATGTGCACAAGAAATACAAGTTTAACCACAGATCTGTGGAGGGTAGTCCAGAGAGACATAGATGCTGCTGAATTCCTTGGGTTTTGCTGTGTGGATGTTGAGAAAGCTGGACGCTGCTGAGGTTAGGAGAAGCAGATACTTCACCTCATTTTTAATCCATTACCTTCATTCAGTAAGGATTGCTGTTGACATTCTTTTCAAATactgcctcacacacacatttcccctCTAGATTGATATAAACAGTACCAAAAATTCATCGGTGACAAAAGGATGGTTTAATAGTACATTTGGTCTAAACTCCTGTCTTAAGCACAAGCTTATTTTTAAGGGAATGGACAAACTTAGATGTTATCTGTTCCATTGTATCCCTTTGCCTTTTCCACACTGTCCCTAAAGTTCTAAACTCTGGGGCCTCAATTATAACATTGAGTGaataatgttgctgttttttgtatttctttttaaaggttCTCAGAACAAAATAAGATAAGCTTTCATGGGTAGAAAAACCTTAACCATTCTGTCCTGGTAGATGATTTTCAAACACTCTCACCCCCCTCTACAGCGAGACCATCTGATATGCAAGTTTTGTCAGTGGGTATTACTCTGCACTgcatcattgtatttttatatttttttattttttttaagacccTTTAATGAAACTGCTTTAGTTTTCACAGCTATAGATTCATTCTGGAGTTTCCAATGTCCCAGTAGTACTGTGAATGTGACCCAGCTTTCAAGTTGATCAAATATTTCCAAAACGCTCTGTTGTTGTCACTAGAATGGGCTCCACCTGAGTTTAGTATTTGCCCGGACCCCTTTGTGTAGCttgactgtaaaaccaaaagAGCTTTTGGCAATGCACCTTGAAGACTACTGATACTTATCAGAAGAAAATTGCCATCATAATAATAGGCTgaactggttaaaaaaataattaaggaagTCAGCTATTTTGGGTGATCTCCATTGGCTCCTCTTGACAGGTTACATAAAGACGATGCATTATTCCTTTAACTGTCACTCGCGGACACTGCCAGAGACCTACAATATTTTTGGGTGATGACTCCTCACTCAAGAAAAGGTGCTCCAATTAAGATTTCCCCCACAAAATAATGACAGCTCAAAGCAAAACTGTCAACCGCCTTGGTGAGCAGGGAGGCAAAGGGTTAATGCATACGAATTCGAAACGCAGTCAAAAGGAGCAAATAAATTGAGCTGCCCACGTTGTGATCGGTCTAGTAAAGAAACATGTCAGCTCTGCTTTACTTCAGCAGATAAGCTGCCTATTAGTTCTGcagataattattattttatccaaGCGTGCCACCTAATggctaaaaacaaaatggcagccTTAATGTGTTCTTAAAggtaatagaaaaacaaacatgttccAATAAGAGcttgttagtattattattattattattattattattattattacacagacaaaacattttcttgtgaACATCAGCAGTCCTATTTACAGTATAATGTCCAGTTATTCTTTTTGGTTTTTCTTACAATCTCACCCTCCACTCCTTGTGTGCAagaatgtgtgtaagtgtatatGGGGgggttgatttgtttgtttgtgtgtgtgtgtgtgtagctgctTCTCAATAGTTAGGTGTTAGTCAATGACAACATCTGACAGTCAACAGTAAAAAGACAGGAGacagaaatacaatattcaaaGCCTTGTCTGGTTGAAAAGTTTCTATTTTTGTAACCCTTGAACAAGAGAGATTACAGGTGGCACTTACAATATTCCTGCAATAATGAAATTAGACGTGATTTGTGTACAaaggaaagattttttttaatgcaagacAATGATAGGAAGTactattttctaaatgttttgggggggtttgtTTAGGTtaggttttattgtttgttctcGCCAGAACTTGTCTAAATGTCTTTATGAACCTTTTTCATTTGTACCCGGATGTGCCATAGTAGGTGCTTGTGTTTTCTCTGTGTCAATGAGacaagtgttttttgttgttgttgttgatgtgaCATTCCAAGAAACAAGAAGCATGAATTCTGTTGGAATAATAATAGTTAGGGTTTGTGAGTAGGAAGCTTTGTATCACGGTTGCTTTTTTGCACATGACCTTCATTCCTCAATAGTGCAATATGTGCATAACTCACTTGTTATGTACTGTTATCCctcagggaaaataaataaataaataacagttaattttacagtttattttctgttgaagttgtttttgttgtaattgttattgttgccGTTCTATTTTATCCTCTTTTGGTTTCGTTTGTTTTGCTAAGGAATGTCAATTGCATAGTTCAGTCAGGTTCCCCACGCAGCAGCCAGTAAAAGATGCACATATTAGTCtttgtgtttatgttgtttttagttATGTACTTTGGTACTGGGTCCCCACTACTCAAACGTAAAGCGGCCTTCAAAAATATTAAGATCTGCCTGCTTTTCCtaatattttcttctaaaaaGCCAAGAACAGAACAAGATTATCAATATAGAAAAAGATGATATGGCACACTGAGCCCCCACCTTTGCTGAATCAATATATCAGatgattttgaatatattagATTCATGCTAAATTCCCATTggaaatagatttaaaaagtaaaatcatgctaaaaatattatacattatatagtATATTTG

Function

symbol description
rora Enables several functions, including ligand-activated transcription factor activity; oxysterol binding activity; and transcription coregulator binding activity. Involved in several processes, including negative regulation of I-kappaB kinase/NF-kappaB signaling; positive regulation of macromolecule metabolic process; and triglyceride homeostasis. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in nucleus.

NR:

description
PREDICTED: nuclear receptor ROR-alpha isoform X3

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043401 steroid hormone mediated signaling pathway biological_process
GO:0030522 intracellular receptor signaling pathway biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0004879 nuclear receptor activity molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K08532 NR1F1, RORA; RAR-related orphan receptor alpha

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00007798 True 5458 mRNA 0.40 9 30388193 30401103

Neighbor

gene id symbol gene type direction distance location
AMCG00007797 vps13c coding upstream 345012 29945120 ~ 30043181 (+)
AMCG00007796 NA coding upstream 446362 29929748 ~ 29941831 (+)
AMCG00007787 etfa,LOC107712526,LOC107557988 coding upstream 779596 29586473 ~ 29608597 (+)
AMCG00007784 scaper,LOC106561156 coding upstream 903010 29437666 ~ 29485183 (+)
AMCG00007785 NA coding upstream 951160 29433012 ~ 29437033 (+)
AMCG00007799 NA coding downstream 7928 30409031 ~ 30429130 (+)
AMCG00007800 anx2a,anxa2,LOC108433632 coding downstream 28737 30429840 ~ 30438133 (+)
AMCG00007802 bnip2,LOC107703138 coding downstream 189111 30590214 ~ 30608023 (+)
AMCG00007806 gtf2a2 coding downstream 209115 30610218 ~ 30613192 (+)
AMCG00007805 otud7a,LOC107715690,LOC107659507,LOC107550219,LOC107752330,LOC107698115,LOC107598848,LOC108275340 coding downstream 330508 30731611 ~ 30774461 (+)
G26262 NA non-coding upstream 584590 29799757 ~ 29803603 (+)
G26249 NA non-coding upstream 647111 29738702 ~ 29741082 (+)
G26243 LOC106587622,LOC106562410 non-coding upstream 658656 29726394 ~ 29729537 (+)
G26196 LOC107575789 non-coding upstream 848131 29539683 ~ 29540062 (+)
G26171 NA non-coding upstream 1012315 29374376 ~ 29375878 (+)
G26319 NA non-coding downstream 1462 30402565 ~ 30406647 (+)
G26360 NA non-coding downstream 109432 30510535 ~ 30522510 (+)
G26430 NA non-coding downstream 543198 30944301 ~ 30945248 (+)
G26429 dnaja4,LOC107659503,LOC104917859 non-coding downstream 544200 30945303 ~ 30946095 (+)
G26433 NA non-coding downstream 554535 30955638 ~ 30955893 (+)
G26258 tpm1,tpma,LOC108237348 other upstream 568641 29755040 ~ 29819552 (+)
AMCG00007788 NA other upstream 663459 29622311 ~ 29724734 (+)
AMCG00007769 acsbg1 other upstream 1381814 29003095 ~ 29006379 (+)
AMCG00007763 tbc1d2b other upstream 1476627 28900058 ~ 28911566 (+)
AMCG00007754 NA other upstream 1688131 28682171 ~ 28700062 (+)
AMCG00007827 ell3,LOC103370942,LOC102298519,LOC102798071,LOC108431223,LOC107714787 other downstream 1013051 31414154 ~ 31440378 (+)
AMCG00007854 NA other downstream 3362410 33763513 ~ 33794941 (+)
AMCG00007873 fam174b,LOC103466638,LOC101474125,LOC102798031,LOC103147863 other downstream 5209879 35610982 ~ 35620801 (+)
AMCG00007889 NA other downstream 5895115 36296218 ~ 36302841 (+)
AMCG00007923 LOC105031092,LOC105901836,LOC102299656,LOC101482251 other downstream 6802767 37203870 ~ 37216558 (+)

Expression


Co-expression Network