LOC122349915 (nphp4,LOC107550077,LOC107695281)


Basic Information

Item Value
gene id LOC122349915
gene name nphp4,LOC107550077,LOC107695281
gene type misc
species tiger barb (Puntius tetrazona)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_056706.1
NCBI id CM032075.1
chromosome length 24299999
location 11096140 ~ 11131238 (-)
genome version ASM1883169v1_2021_tiger_barb_Genome

Sequence

>TU93213
TGTAATATGATTGTGAAAATAACAGCGTGATGAGCGTTTGTCAAAAATGACAGAAGTAGTTattctgtaaaattagcccaacTTACACGCGACATGCGTTAGcagcagaaaagaaagagagttgTGTCCTGCAGAGACTGAAATTAATGAGCAGCCTAAAAAGTCTCTGGGTGATTTAGCGTCGCATTTAGTCAATATTCCgcgtttttaattaaataacaagcGCTTAACTTCGCCTGCGGGGATGATTTAACAACCTGCGAAACCTTTAGGCGTTTTCAGGAATGTTTGCCAGGGGACATTAACGCTTACTGACCGACTGACCCCTTTATAGAAACGTTCCGCGGTCGGTTGATAATTCTAAAGAAACCCGCACATGTCTGACTGGAAAAGCGCTTTCTTGAGGAACCGCGTGATCCCGCCTCACAGCCAAACAGCCAGACAAGCTCCAGGATCTTCTCAAGGTCTTCAGCTGCTCTTCAAACAGATAGATGGACTTCACCTAAAacagTCAGAGTCATCGCCATCACTCCAGTATCAGCTGCGTGTGACCCTGTTTGACTCGGGTCACCAGCACTTCTTCGGGCGCACATGGAAGAGCGGCTCACACTCTGTCAGTGGCGTACAGGGTCAGAGCGGTCGGGTGCTCTTCAATGAGGTTGCATACTTCCACACTTCCTTGTGTTTGAGTTCTGTGGTGGCAGTGGTGGAGTTGGTTACTCTGTCTACCAGGGCAGACAGTTCCCAGGATGCACTGGGGTCGGGGTTTGGACTGCTTCAGCTCTTCACAGGTCGCGCAGACACCGGCATCTCTCAGGGGGAGGGCAGGTTAACTCTCTTCAGTGGGACCCCTAGAGCCCTCTTTCACCCGATGCTGAAAGACCCTTTACAGTTGAATGCTGTATTATCAGTGATGGAGGGCTGTCAGCTGCTTTACTCCATACAGCCACACCCAGCTCTCACTCCCATCATGCACCTGCTCCCGCCCAACATTTTGGTGTCTGGACATGACAGCGTCCCCGGTGTGCTGTCATCTGCGGACACAGGCACAGATGTGCTGCGGAAGCCTCGTCTGTTGAAGAGCTTCTCGTGTGTGTTGGAGGGACTACGTGTGGCACTCTTCCCCTCCGTGGAGGTCTTCGAATCTGACCTGCTCCAGCTGCTCAACAGAGACTGCCAGAATACAG
>XM_043246051.1
TGATTACTAGCTGAGCCGTTTTTTCATTACATGTAATATGATTGTGAAAATAACAGCGTGATGAGCGTTTGTCAAAAATGACAGAAGTAGTTattctgtaaaattagcccaacTTACACGCGACATGCGTTAGcagcagaaaagaaagagagttgTGTCCTGCAGAGACTGAAATTAATGAGCAGCCTAAAAAGTCTCTGGGTGATTTAGCGTCGCATTTAGTCAATATTCCgcgtttttaattaaataacaagcGCTTAACTTCGCCTGCGGGGATGATTTAACAACCTGCGAAACCTTTAGGCGTTTTCAGGAATGTTTGCCAGGGGACATTAACGCTTACTGACCGACTGACCCCTTTATAGAAACGTTCCGCGGTCGGTTGATAATTCTAAAGAAACCCGCACATGTCTGACTGGAAAAGCGCTTTCTTGAGGAACCGCGTGATCCCGCCTCACAGCCAAACAGCCAGACAAGCTCCAGGATCTTCTCAAGGTCTTCAGCTGCTCTTCAAACAGATAGATGGACTTCACCTAAAacagTCAGAGTCATCGCCATCACTCCAGTATCAGCTGCGTGTGACCCTGTTTGACTCGGGTCACCAGCACTTCTTCGGGCGCACATGGAAGAGCGGCTCACACTCTGTCAGTGGCGTACAGGGTCAGAGCGGTCGGGTGCTCTTCAATGAGGTTGCATACTTCCACACTTCCTTGTGTTTGAGTTCTGTGGTGGCAGTGGTGGAGTTGGTTACTCTGTCTACCAGGGCAGACAGTTCCCAGGATGCACTGGGGTCGGGGTTTGGACTGCTTCAGCTCTTCACAGGTCGCGCAGACACCGGCATCTCTCAGGGGGAGGGCAGGTTAACTCTCTTCAGTGGGACCCCTAGAGCCCTCTTTCACCCGATGCTGAAAGACCCTTTACAGTTGAATGCTGTATTATCAGTGATGGAGGGCTGTCAGCTGCTTTACTCCATACAGCCACACCCAGCTCTCACTCCCATCATGCACCTGCTCCCGCCCAACATTTTGGTGTCTGGACATGACAGCGTCCCCGGTGTGCTGTCATCTGCGGACACAGGCACAGCAGATGTGCTGCGGAAGCCTCGTCTGTTGAAGAGCTTCTCGTGTGTGTTGGAGGGACTACGTGTGGCACTCTTCCCCTCCGTGGAGGTCTTCGAATCTGACCTGCTCCAGCTGCTCAACAGAGACTGCCAGAATACATCTTCCCTTGTTGGTGTTGCTGAGGATTACGTCATCACATAATTTATCATATGTATGATAATCCCCCAGTCATAGCTCTCCAGAGACATTGATCAAGATACTAGCCCTATCTGTTATCGACTTATGCTTTTCCAAACACGAGGGAGGAGGGCGCACTGAGCTCGAAATGGACAATCAAtatcattttttcataaatgatataaagacaattattattatttttcctttttactgtCTTTTAGAGGCATCAAATAAAATCTTGGGAAGGGAGAGATCAAACAGATCTCAAATAAcagactttcaaaa
>XM_043246052.1
TGATTACTAGCTGAGCCGTTTTTTCATTACATGTAATATGATTGTGAAAATAACAGCGTGATGAGCGTTTGTCAAAAATGACAGAAGTAGTTattctgtaaaattagcccaacTTACACGCGACATGCGTTAGcagcagaaaagaaagagagttgTGTCCTGCAGAGACTGAAATTAATGAGCAGCCTAAAAAGTCTCTGGGTGATTTAGCGTCGCATTTAGTCAATATTCCgcgtttttaattaaataacaagcGCTTAACTTCGCCTGCGGGGATGATTTAACAACCTGCGAAACCTTTAGGCGTTTTCAGGAATGTTTGCCAGGGGACATTAACGCTTACTGACCGACTGACCCCTTTATAGAAACGTTCCGCGGTCGGTTGATAATTCTAAAGAAACCCGCACATGTCTGACTGGAAAAGCGCTTTCTTGAGGAACCGCGTGATCCCGCCTCACAGCCAAACAGCCAGACAAGCTCCAGGATCTTCTCAAGGTCTTCAGCTGCTCTTCAAACAGATAGATGGACTTCACCTAAAacagTCAGAGTCATCGCCATCACTCCAGTATCAGCTGCGTGTGACCCTGTTTGACTCGGGTCACCAGCACTTCTTCGGGCGCACATGGAAGAGCGGCTCACACTCTGTCAGTGGCGTACAGGGTCAGAGCGGTCGGGTGCTCTTCAATGAGGTTGCATACTTCCACACTTCCTTGTGTTTGAGTTCTGTGGTGGCAGTGGTGGAGTTGGTTACTCTGTCTACCAGGGCAGACAGTTCCCAGGATGCACTGGGGTCGGGGTTTGGACTGCTTCAGCTCTTCACAGGTCGCGCAGACACCGGCATCTCTCAGGGGGAGGGCAGGTTAACTCTCTTCAGTGGGACCCCTAGAGCCCTCTTTCACCCGATGCTGAAAGACCCTTTACAGTTGAATGCTGTATTATCAGTGATGGAGGGCTGTCAGCTGCTTTACTCCATACAGCCACACCCAGCTCTCACTCCCATCATGCACCTGCTCCCGCCCAACATTTTGGTGTCTGGACATGACAGCGTCCCCGGTGTGCTGTCATCTGCGGACACAGGCACAGATGTGCTGCGGAAGCCTCGTCTGTTGAAGAGCTTCTCGTGTGTGTTGGAGGGACTACGTGTGGCACTCTTCCCCTCCGTGGAGGTCTTCGAATCTGACCTGCTCCAGCTGCTCAACAGAGACTGCCAGAATACATCTTCCCTTGTTGGTGTTGCTGAGGATTACGTCATCACATAATTTATCATATGTATGATAATCCCCCAGTCATAGCTCTCCAGAGACATTGATCAAGATACTAGCCCTATCTGTTATCGACTTATGCTTTTCCAAACACGAGGGAGGAGGGCGCACTGAGCTCGAAATGGACAATCAAtatcattttttcataaatgatataaagacaattattattatttttcctttttactgtCTTTTAGAGGCATCAAATAAAATCTTGGGAAGGGAGAGATCAAACAGATCTCAAATAAcagactttcaaaa

Function

symbol description
nphp4 Acts upstream of or within several processes, including determination of left/right symmetry; regulation of Wnt signaling pathway; and urogenital system development. Predicted to be located in cytoskeleton. Predicted to be active in several cellular components, including ciliary basal body; ciliary base; and ciliary transition zone. Is expressed in blastomere. Human ortholog(s) of this gene implicated in Joubert syndrome 4; Senior-Loken syndrome; congenital heart disease; nephronophthisis; and nephronophthisis 4. Orthologous to human NPHP4 (nephrocystin 4).

NR:

description
PREDICTED: nephrocystin-4-like

GO:

id name namespace
GO:0072114 pronephros morphogenesis biological_process
GO:0035844 cloaca development biological_process
GO:0090090 negative regulation of canonical Wnt signaling pathway biological_process
GO:0070121 Kupffer's vesicle development biological_process
GO:2000096 positive regulation of Wnt signaling pathway, planar cell polarity pathway biological_process
GO:0060028 convergent extension involved in axis elongation biological_process

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU93213 False 1187 TUCP 0.51 6 11097002 11131207
XM_043246051.1 True 1526 mRNA 0.47 7 11096140 11131238
XM_043246052.1 False 1523 mRNA 0.47 7 11096140 11131238

Neighbor

gene id symbol gene type direction distance location
c8h1orf174 cunh1orf174,LOC107731178,LOC107668010,LOC107745779,LOC107549271 coding downstream 128053 10964582 ~ 10968087 (-)
LOC122350349 nphp4,LOC107695281,LOC107550077 coding downstream 134150 10826429 ~ 10961990 (-)
LOC122349966 NA coding downstream 562802 10529443 ~ 10533338 (-)
LOC122349964 ela2l,LOC107745782,LOC107695279,LOC107549241 coding downstream 567423 10526347 ~ 10528717 (-)
LOC122349990 gpr37l1b,LOC107731282,LOC107668115,LOC107585901,LOC107695275,LOC107549203,LOC107745785 coding downstream 604940 10487790 ~ 10491200 (-)
LOC122349916 cunh1orf174,LOC107731178,LOC107668010,LOC107745779,LOC107549271 coding upstream 3465 11134703 ~ 11137541 (-)
LOC122349917 cep104,LOC107668088,LOC107745778,LOC107695283 coding upstream 9945 11141183 ~ 11159286 (-)
lrif1 NA coding upstream 91802 11223040 ~ 11228121 (-)
apex2 apex2,LOC107668008,LOC107550000,LOC107695293,LOC107549375,LOC107745771 coding upstream 98091 11229329 ~ 11232003 (-)
csde1 csde1,LOC107731193,LOC107549382,LOC107695294,LOC107549999,LOC107745769,LOC107668033 coding upstream 104236 11235474 ~ 11250583 (-)
LOC122351000 NA non-coding downstream 271089 10819217 ~ 10825051 (-)
LOC122350960 NA non-coding downstream 296177 10755389 ~ 10799963 (-)
G62861 LOC107549259,LOC107745781,LOC107668121,LOC107555602 non-coding downstream 398015 10696335 ~ 10698125 (-)
G62835 alas2,LOC107731137,LOC107555603,LOC107549233,LOC107745783,LOC107667982 non-coding downstream 573653 10520659 ~ 10522487 (-)
G62831 NA non-coding downstream 662024 10431781 ~ 10434116 (-)
G62974 NA non-coding upstream 65915 11197153 ~ 11205373 (-)
G62977 NA non-coding upstream 70457 11201695 ~ 11210161 (-)
G62992 NA non-coding upstream 145121 11276359 ~ 11276914 (-)
G63014 NA non-coding upstream 275716 11406954 ~ 11441996 (-)
G63065 NA non-coding upstream 391784 11523022 ~ 11523638 (-)
cep104 cep104,LOC107668088,LOC107745778 other downstream 105405 10973305 ~ 10990735 (-)
trnar-ccg_26 NA other downstream 555849 10540219 ~ 10540291 (-)
G62826 cry1ba,LOC108265656,LOC108441644,LOC103461922,LOC105026018,LOC102226488 other downstream 616089 10440764 ~ 10480051 (-)
G62760 gpr37l1b,LOC107585901,LOC107731282,LOC107668115,LOC107549203,LOC107695275,LOC107745785,LOC108441645 other downstream 704097 10389183 ~ 10392043 (-)
smim24 smim24,LOC107580287 other downstream 847984 10245196 ~ 10248156 (-)
smim1 smim1,LOC107668050 other upstream 432 11131670 ~ 11169473 (-)
LOC122350269 LOC107549994,LOC107731173,LOC107745767,LOC107695299,LOC107668028,LOC560461,LOC107549455 other upstream 153116 11284354 ~ 11345988 (-)
G63095 NA other upstream 431040 11562278 ~ 11615925 (-)
G63274 nt5dc2,LOC107731170,LOC107549943,LOC107668043,LOC107550186,LOC107678756,LOC107745746 other upstream 647033 11778271 ~ 11779251 (-)
prok1 prok1,LOC107680267,LOC107711938,LOC107731240 other upstream 920119 12051357 ~ 12054530 (-)

Expression


Co-expression Network