XLOC_019775 (ripply1)


Basic Information

Item Value
gene id XLOC_019775
gene name ripply1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 37966933 ~ 37973819 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00038923
ATGAATTCTGTGTGCTTTGCCACTCCTCATACTAAACATATGGGCAGTAAAATGCAGCTGACAAGCAGCCCAGCTTCCTTGTGGAGACCGTGGCTTGTGACCAGAAAAGATGCTCAAACCGAATGCAGAAGAACCAAGCTGGCTTGTCCTTACTCTAGGCCAGAGGTGCCCGGTAACACTACAACAGATGGCAAAATGCAGTCTTTCCAGCACCCTGTCAGGCTGTACTGGCCCAGATCGAAATCTTTCGACTACCTTTTCAGCGACGGAGAGGCTCTGCTCAGAAATTTCCCAGTGCAGGCGACCATCAACTTTTACGATGAGTCCGACAGCGAGGACGAGGAGGAAAGctgtgatgaagatgatgaaagTGACGTCGAGGACTGTTTAAAACACAACAGTCACTTCACAGCTTTCAACTGAAGCCACAGCCTGCCCGTCTGTGCGAATTTGACGTCACCAGGAGGAAAGATCATAAATTTAACATTGACACCGCATCGCGCTCTATTAGAGAAGCCGTGCTATGAATAATTCAGCACACAGATGTGCTCTTTCTAAAGCACAGAAGGGTTTTACTGATTGTTTTGCACAGGAAAAATCAATGCAGATGCAGAAATGTTGAGCATGAATGTAATTCCTGTTTAAAATAGTGGAAATACAATCCCACATTGGGAAATGTAGATTCAGGTCAATCTCAGGGTTTTTCTTTTGTATATATAATTCTATTTGTATTCTCTTACTCATCCCTAACTTATGATGTACAataatgtatatacatatatgtatttatggcatattttttttacttttgtacttttgatttaaaataaaatctatttaaatgagTGCAATGATCTTGTCTATTGTGGAATTTTTGTCACCTGTATCACACTTCATATGTagatatgaatttgtatgaatttatatGGTCTCTTGTACATTTTAGTATTATATACTCCTCCCggaatgacagttgggtttaaaaGTGTGGGGTTTGCAGGGTTTCAGTGGAGCATTAACAGTCATTAATCTGATTTTGCAAACATTACGGCCTCAAGTCAGGAAACGTTTTCCTCCACCAGTAACatgtagtgacctggccactTTTCTGCAAGAAGAATGCCTCAAAATCCATCTGGCCACTGTGCTGGACgtgtatctgtcattcccaaaacTAATTGATGCTAATGAATTACTGTGGTCTAAAATCAGGCCTTTCGGTGTCATTGTCCAACACCATACTGCAATTTCCTGCTTGACTCAAATGATTACAAAATCATGCCAAATCATTATAAAAAGGTGTCTGAGTTAGAACTAAAAGCAAGTGATTTAAGGCAAATTTAACTTGTTAAAAGTTTTGAGTCACATTTAAAG
>TCONS_00038924
ATGCGCTCGGACTGACCGCGGATCAGACTTCAGTTCCGCGGGTTTTTGATGGTGTGCAAGTTTGCCCCTCCGTGTTGTTCTAAAAACCTCACGGTACCAGTTTTCTCACCCTCACGCTGGGGCGCACTGTTTACTCAACTGGAGAAGTCTTCGCACCAAAATGTCCATAGCACACTATATCCCGATCGTTTGGCAAACAGCACCAAACCCCCTCTTAAAACAACCTCGGGTCATTTGGCATCGGCTGCACCGTCCAGCTCCGCCCCCTGCAGCAGCAGCTGCATAAAAACCCCGAGAGCGACGCGCCTTCATTCATTCACTGCCCCGGTAAGGACGacgactgaccgaccgaccgccGGACTATTCTCTACCAGCCCGAAACAAAACGAAAAACACAGTGACGATGAATTCTGTGTGCTTTGCCACTCCTCATACTAAACATATGGGCAGTAAAATGCAGCTGACAAGCAGCCCAGCTTCCTTGTGGAGACCGTGGCTTGTGACCAGAAAAGATGCTCAAACCGAATGCAGAAGAACCAAGCTGGCTTGTCCTTACTCTAGGCCAGAGGTGCCCGGTAACACTACAACAGATGGCAAAATGCAGTCTTTCCAGCACCCTGTCAGGCTGTACTGGCCCAGATCGAAATCTTTCGACTACCTTTTCAGCGACGGAGAGGCTCTGCTCAGAAATTTCCCAGTGCAGGCGACCATCAACTTTTACGATGAGTCCGACAGCGAGGACGAGGAGGAAAGctgtgatgaagatgatgaaagTGACGTCGAGGACTGTTTAAAACACAACAGTCACTTCACAGCTTTCAACTGAAGCCACAGCCTGCCCGTCTGTGCGAATTTGACGTCACCAGGAGGAAAGATCATAAATTTAACATTGACACCGCATCGCGCTCTATTAGAGAAGCCGTGCTATGAATAATTCAGCACACAGATGTGCTCTTTCTAAAGCACAGAAGGGTTTTACTGATTGTTTTGCACAGGAAAAATCAATGCAGATGCAGAAATGTTGAGCATGAATGTAATTCCTGTTTAAAATAGTGGAAATACAATCCCACATTGGGAAATGTAGATTCAGGTCAATCTCAGGGTTTTTCTTTTGTATATATAATTCTATTTGTATTCTCTTACTCATCCCTAACTTATGATGTACAataatgtatatacatatatgtatttatggcatattttttttacttttgtacttttgatttaaaataaaatctatttaaatgagTGCA
>TCONS_00038925
caaaagaagacatactgaagaatgttggaaaatgattacaggattccatcattcttcaaaacttctttatttatgtttaacagaaaaaaaaaagtttgaaacaagctcgttttcattttttggtgaattatccctttattttaaattttttgcatATCAATGACGTATTAAATGTATACTGACATTATACTTTCTTATTTTATACACACTATTACGTATGGGACGCTCCATCCTTTTTGGAAGGTTTTTAGCTGTGTGTGACAATTAGTGACCCGTGGGGCATTTTGGAGCATCAGCAGGTTGCTTTAAGGTGACAGACAGGCATGTGGTGAGCATTAGTGAGCATAAGGTGTTTCATTGACAGCAGCTCTAGCGCCGAGACAAACTCGGCCATATGGCACCACTGTCTGAGTGTGAACCCTGAGTCTGTGCCCAGACACGAGGTGTAGGGAAAACAGCTCTCAGCTCGCTTGCCAACATCCAAGCAGACACCTAGCTTTGAGAAAGGGAGTTGGAGGCAGTTTCCCACAAACACTTTAGCCTGACACCCCTCCATGTCACAGCTTTTCGCATCCTGCCCGGAGTGTTTTACACCCACGAAGCTGGCAGCGCTTTCACCTCATAAACACCGGACAGGAAGCATTGTTTGAGTTTGTGTTGCACGCATGTGGTCTTACacgtctttatttttttaattttccagCCTTACTCTAGGCCAGAGGTGCCCGGTAACACTACAACAGATGGCAAAATGCAGTCTTTCCAGCACCCTGTCAGGCTGTACTGGCCCAGATCGAAATCTTTCGACTACCTTTTCAGCGAC
>TCONS_00038926
CTTAAGGAAATTTACTAGTCTACAAAAACAACATGTTTACTTTATCTAGTTAATGTTAAATCATGGAAATTCACTTCGATTTTGGCTGTTTATGCTAACCATAGTATTTGTAAAACTGTAAGATGTTAAATAGCCTACAAAAGGCAAAGAATGCGCCAAAAATTAGGCCTATTTCAACATTTCACTACATGAAAACAGGGATCATTGTCGTCTCTTAATTTAATGTAGACTCGAAACCTAataactaactagctaactacATTAGTTATATATGGCTGCACTCCTGTGTCGCCCCCCTGTCGTCTTTCTCGCAGATGGTGTGCAAGTTTGCCCCTCCGTGTTGTTCTAAAAACCTCACGGTACCAGTTTTCTCACCCTCACGCTGGGGCGCACTGTTTACTCAACTGGAGAAGTCTTCGCACCAAAATGTCCATAGCACACTATATCCCGATCGTTTGGCAAACAGCACCAAACCCCCTCTTAAAACAACCTCGGGTCATTTGGCATCGGCTGCACCGTCCAGCTCCGCCCCCTGCAGCAGCAGCTGCATAAAAACCCCGAGAGCGACGCGCCTTCATTCATTCACTGCCCCGGTAAGGACGacgactgaccgaccgaccgccGGACTATTCTCTACCAGCCCGAAACAAAACGAAAAACACAGTGACGATGAATTCTGTGTGCTTTGCCACTCCTCATACTAAACATATGGGCAGTAAAATGCAGCTGACAAGCAGCCCAGCTTCCTTGTGGAGACCGTGGCTTGTGACCAGAAAAGATGCTCAAACCGAATGCAGAAGAACCAAGCTGGCTTGTCCTTACTCTAGGCCAGAGGTGCCCGGTAACACTACAACAGATGGCAAAATGCAGTC

Function

symbol description
ripply1 Involved in negative regulation of transcription, DNA-templated and somite rostral/caudal axis specification. Acts upstream of or within regulation of skeletal muscle tissue development and somite specification. Located in nucleus. Is expressed in several structures, including margin; paraxial mesoderm; presumptive paraxial mesoderm; shield; and somite. Orthologous to human RIPPLY1 (ripply transcriptional repressor 1).

GO:

id name namespace
GO:0001756 somitogenesis biological_process
GO:0001757 somite specification biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0007275 multicellular organism development biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0048641 regulation of skeletal muscle tissue development biological_process
GO:0032525 somite rostral/caudal axis specification biological_process
GO:0005634 nucleus cellular_component
GO:0005515 protein binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060113-1 Involved in negative regulation of transcription, DNA-templated and somite rostral/caudal axis specification. Acts upstream of or within regulation of skeletal muscle tissue development and somite specification. Located in nucleus. Is expressed in several structures, including margin; paraxial mesoderm; presumptive paraxial mesoderm; shield; and somite. Orthologous to human RIPPLY1 (ripply transcriptional repressor 1).

Ensembl:

ensembl_id ENSDARG00000054103

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00038923 False 1374 mRNA 0.40 4 37966933 37972412
TCONS_00038924 False 1253 mRNA 0.46 5 37967457 37973819
TCONS_00038925 False 823 lncRNA 0.43 3 37968040 37971155
TCONS_00038926 True 872 mRNA 0.46 3 37970344 37973081

Neighbor

gene id symbol gene type direction distance location
XLOC_019774 PRRG3 coding downstream 3792 37941347 ~ 37963141 (-)
XLOC_019773 FO704750.1 coding downstream 33100 37915193 ~ 37933833 (-)
XLOC_019772 gabrb4 coding downstream 77206 37787805 ~ 37889727 (-)
XLOC_019771 mpp1 coding downstream 233362 37668173 ~ 37733571 (-)
XLOC_019770 ndfip1l coding downstream 305363 37637679 ~ 37661570 (-)
XLOC_019776 rbm41 coding upstream 23003 37996822 ~ 38031138 (-)
XLOC_019777 BX530030.1 coding upstream 89378 38063197 ~ 38063314 (-)
XLOC_019778 klf5l coding upstream 155058 38128877 ~ 38153824 (-)
XLOC_019779 NA coding upstream 483464 38457283 ~ 38463146 (-)
XLOC_019780 pof1b coding upstream 535646 38509465 ~ 38582061 (-)
XLOC_019769 NA non-coding downstream 334225 37594351 ~ 37632708 (-)
XLOC_019768 NA non-coding downstream 384819 37578746 ~ 37582114 (-)
XLOC_019765 BX649250.1 non-coding downstream 893853 37072951 ~ 37073080 (-)
XLOC_019757 NA non-coding downstream 1911526 36054484 ~ 36055407 (-)
XLOC_019755 NA non-coding downstream 2316837 35645538 ~ 35650096 (-)
XLOC_019782 NA non-coding upstream 655489 38629308 ~ 38632907 (-)
XLOC_019791 CU442763.1 non-coding upstream 1293406 39267225 ~ 39267306 (-)
XLOC_019793 NA non-coding upstream 1354284 39328103 ~ 39337096 (-)

Expression


Co-expression Network