XLOC_001000 (ptcd1)


Basic Information

Item Value
gene id XLOC_001000
gene name ptcd1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 8555323 ~ 8566567 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00001588
ACAGGGAACATGGCGACTTCCAATGGCAACATCATGTGAGAAATCCTGGCGGCTGTTTATGTTTTGAATGGATTTCAAATGGAGTAGCTAGGTTTTAGTTCACAAATAATGTCCAAAATGTTGCGTTCAGCATTTCAGAGGGGGGTTTTGACACGGAACAGCGGTGTTAATGTTTTAAAGTGCGCTGCTTCATTTTCAAGCCTGCGGAGATCAGCTTTCTGTCCTTCAGAAAGAGTCCAGCAAAAGAACCTGAGATTCTTCAGCGAGTCAGCCACTTTAAGAGCTCCGAAATGGACCGAGAGCAGCAGCTCCATTTCAAACGCATTTGATCACGTGCCTGAGGAAAACAAAGGAGATTCATTTGGCGATTATTCTAGAAAATTTTCCTCCAAACGAATTTTCCGTAAAGCATCAGCAGAGCAGCGGGATCTGAAATACAGAAACCCCGAAGAGGAGGATGATGAGGATCAGAAGCCAGTGGAAAAGTTCAAGTCCAGAACGGGTCGCAGAAACACACCATACTGGTACTTCCTCCAGTGCAAAAGGCTCATCAAAGAGGATAAACTGGCTGAGGCATTAGTTATGTTTGAGGCTGAAATGCTCAAAGGTGAGCGGTTGCAGCCTGAGGAATTCAATTACACCGTTCTCATCGGTGGATGTGGACGCGTGGGATACCTAAAGAAAGCCTTCCAGCTGTACAATAATATGAAGAAGCGAAGCATAGAGCCGTCAGATGCGACATACACCGCCCTGTTCAACGCTTGTGCCGAGTCACCATGGAAACAGTCAGGGCTGGAACAGGCACTGAAGCTCAAACAGGAGCTCCTCAAGAAGAACATCGCTCTCTCTGCCATCACCCAGCATGCTTTGCTCAAAACAGTCGCTCTTGCTGGAGATCTGCAGTCATGCTTTCAGCTTCTGCGAGAGATGCTTCAGAATGGCCAACCAATCACACAAGAGACATTTCAGTATCTGCTGatcagctgtgtgaatgacaaGCAGCATGGGTTCAGACTGGCTTTACAGGTGTGGCACCAGATGCTTAATATTGGAATAAAACCAGATGCTCAAAATTACAACATACTCCTGCGGGCTGCACGGGATTGTGGGATAGGTGATCCCAATCTGGCTTCTGCAATATTACTGAAGAGACCAGAAGATGAGGCAAACCCAAAAATCACAAGTGGAAGAAAAAGCCGCAGAGCAAAAGTCAAAGCGGAGACGTCGTGTCAGCACTTAGATATCGATGCATTTGAGAACGAGTTATTTGTagatacacaaacacagagactTGGACTAACCAAAGAGAGTGAGTTGAAGGAAAAAGATCAAAGTATAAAAGACGCATCTCAAGATGAGACTCAAATGCTGCCTGTATCATCAAGCGGCTCTCTGACCTGTCAATCAGAATTATCAGCACACAGCTCCAGTTTGCCAAACCTCTTGGAGCCCAGAACTTGCCACTCAAGTGTGGTCGCCTTGGGGTCTGTGAATAGTGCTTCCGATAGACTTGCTCTCATTGGAAATCTTGAAGGCTTTTTGGAGAAAATGGCCAAAGATGGACAGAAGCCCAACATTAAAACCATCACACTGTTGGCTGATGTCATGGAAGCTGGCAGCCAATCAGTGCAGAGTTTGATTGATGTGGCCAAAAGGAGTCACGTCAAGCTGGATGTGCCGTTCTTTAACACTGTGATCAAAAGGGTGGCCAAGGCTGGAGACTTGGATGGCGCTAAGGCTGTAAAAGCTCTTATGGTTGACAGAGGTCTGGTCGCGAACGCTCAGACGTTCTGTAGTATTGCTTTGGCCTGCCGAAGAGAGGAAGATGCAATGCAACTCTTTACAGATATGGAGGCTTGTGGAATTGTACCGAATGCTCATATATACAGTGCTCTGATCAGCCAAGGACTGAAGCGTTTGGACTACGCGTATCTGCATGAACTtctcaaacacatgcacaaaatgCAGGTGCCGCCCAATGAGGTCATCATCAGACAGCTGGAGTTTGCATCTCAATATCCTCCATCATATGACAAGTTAAAATCACAAAACGTATACCTGGACAGGATTGATGGCTTTCGTGGGTTTTACAAGGAATGGCTGGAGTTCATGCCTGGCCAGGAAACCCCGCACCCCTGGGCCAAGTATCAGTCACCGAAACCAGAGTCAAATCAAGATGGAGTAAAACAAGTTTCAGAATAAATCTTGACTCAATTGAGCTTGAAGTTATACATGTAAAGGTTGCCTGACCTTAATTGTGAATGTATCTAAGGCTGATTTtgaatatgtctgataataattgtacatttgttttgtatatattaaacatttgtatttaatatta

Function

symbol description
ptcd1 Predicted to enable tRNA binding activity. Predicted to be involved in tRNA 3'-end processing. Predicted to be active in mitochondrial matrix. Orthologous to several human genes including PTCD1 (pentatricopeptide repeat domain 1).

GO:

id name namespace
GO:0042780 tRNA 3'-end processing biological_process
GO:0005759 mitochondrial matrix cellular_component
GO:0000049 tRNA binding molecular_function

KEGG:

id description
ko03016 Transfer RNA biogenesis
ko03029 Mitochondrial biogenesis

ZFIN:

id description
ZDB-GENE-030131-6146 Predicted to enable tRNA binding activity. Predicted to be involved in tRNA 3'-end processing. Predicted to be active in mitochondrial matrix. Orthologous to several human genes including PTCD1 (pentatricopeptide repeat domain 1).

Ensembl:

ensembl_id ENSDARG00000076176

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00001588 True 2344 mRNA 0.45 8 8555323 8566567

Neighbor

gene id symbol gene type direction distance location
XLOC_000999 zgc:112980 coding downstream 2025 8539671 ~ 8553298 (-)
XLOC_000998 NA coding downstream 45257 8504977 ~ 8510066 (-)
XLOC_000997 syngr3b coding downstream 126562 8415983 ~ 8428761 (-)
XLOC_000996 NA coding downstream 350095 8202390 ~ 8205228 (-)
XLOC_000995 grapb coding downstream 362905 8165340 ~ 8192418 (-)
XLOC_001001 NA coding upstream 12588 8579155 ~ 8587359 (-)
XLOC_001002 NA coding upstream 46008 8612575 ~ 8625266 (-)
XLOC_001003 fbxl18 coding upstream 71595 8638162 ~ 8646941 (-)
XLOC_001004 actb1 coding upstream 82532 8649099 ~ 8653385 (-)
XLOC_001005 abcg2b coding upstream 106494 8673061 ~ 8691969 (-)
XLOC_000985 CR855320.6 non-coding downstream 635117 7920119 ~ 7920206 (-)
XLOC_000981 BX908756.3 non-coding downstream 710961 7771557 ~ 7844362 (-)
XLOC_001008 NA non-coding upstream 407933 8974500 ~ 8977963 (-)
XLOC_001009 NA non-coding upstream 412338 8978905 ~ 8980671 (-)
XLOC_001010 NA non-coding upstream 515275 9081842 ~ 9082772 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000300_00409010_00415812 NA coding CI01000300 null 408899 ~ 416099 (-)