XLOC_033964 (shha)


Basic Information

Item Value
gene id XLOC_033964
gene name shha
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007118.7
NCBI id CM002891.2
chromosome length 74282399
location 40884012 ~ 40893295 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00066485
CCAATCAGGTCCCTCCCTACCTCAGATCGCAGCTATAATACATAGGAGTAAAGAGGCTTCTCGCATTAAGTGGCTGTGGCTTGAAGTAACGTTGTGATTTCGAGGTCAGTCTTACCTTTCGCATCCCCGCCGCAAACCTCCGATGCGTTATCAGTCGCACGTTTCCGCACCTGTCACGGTCGGGGCTTGGCGCTGCTGAGGGACACGCGTGAACCGAGGAGACGGCAAGGACATCGCCGGAGATCCGCGCCTCGACAACGAGAAACCCTGCTAGACAGACCGCTCGAGAACACCGCAGCGAGATTCAGCGTGCGGCAAAATGCGGCTTTTGACGAGAGTGCTGCTGGTGTCTCTTCTCACTCTGTCCTTGGTGGTGTCCGGACTGGCCTGCGGTCCTGGCAGAGGCTACGGCAGAAGAAGACATCCGAAGAAGCTGACACCTCTCGCCTACAAGCAGTTCATACCTAATGTCGCGGAGAAGACCTTAGGGGCCAGCGGCAGATACGAGGGCAAGATAACGCGCAATTCGGAGAGATTTAAAGAACTTACTCCAAATTATAATCCCGACATTATCTTTAAGGATGAGGAGAACACGGGAGCGGACAGGCTCATGACACAGAGATGCAAAGACAAGCTGAACTCGCTGGCCATCTCTGTAATGAACCACTGGCCAGGGGTTAAGCTGCGTGTGACAGAGGGCTGGGATGAGGACGGTCACCATTTTGAAGAATCACTCCACTACGAGGGAAGAGCTGTTGATATTACCACCTCTGACCGAGACAAGAGCAAATACGGGACACTGTCTCGCCTAGCTGTGGAGGCTGGATTTGACTGGGTCTATTACGAGTCCAAAGCCCACATTCATTGCTCTGTCAAAGCAGAAAATTCGGTTGCTGCGAAATCTGGGGGCTGTTTCCCAGGTTCGGCTCTGGTCTCGCTCCAGGACGGAGGACAGAAGGCCGTGAAGGACCTGAACCCCGGAGACAAGGTGCTGGCGGCAGACAGCGCGGGAAACCTGGTGTTCAGCGACTTCATCATGTTCACAGACCGAGACTCCACGACGCGACGTGTGTTTTACGTCATAGAAACGCAAGAACCCGTTGAAAAGATCACCCTCACCGCCGCTCACCTCCTTTTTGTCCTCGACAACTCAACGGAAGATCTCCACACCATGACCGCCGCGTATGCCAGCAGTGTCAGAGCCGGACAAAAGGTGATGGTTGTTGATGATAGCGGCCAGCTTAAATCTGTCATCGTGCAGCGGATATACACGGAGGAGCAGCGGGGCTCGTTCGCACCAGTGACTGCACATGGGACCATTGTGGTCGACAGAATACTGGCGTCCTGTTACGCCGTAATAGAGGACCAGGGGCTTGCGCATTTGGCCTTCGCGCCCGCCAGGCTGTATTATTACGTGTCATCATTCCTGTTCCCCCAAAACTCCAGCAGTCGGTCCAATGCGACTTTACAACAGGAGGGGGTCCACTGGTACTCCAGGCTCCTGTATCAAATGGGAACGTGGCTTTTGGACAGCAACATGCTTCATCCTTTGGGGATGTCAGTAAACTCAAGCTGAAAACCCTCGTGTGGAAATAAAGCAAGAGAAATCACACTAATGTAGGATATAAGACAATATTAGTacaagagagagagcgagagtgagagagagactaAGGCTCCGAGCGGAGTTGGGATATTTATTacaatgactttaaaaaaatgtcattttcaaaGAATAAATGGAGCCTTAAAAGTTTTCTTTGCATAATTTATTCTCGCGTGAACTCAGGCtggtgccacacacacacacggagtcGAATGCAGTGTGACCATCCAGCGGTGCAGAATCTATTTTTGTATCTCATGAAAACGGGACAAAGagagcgcgagagagagagagagaaagagagagagagagagataatgtCAGACAGAAACCTTCATGACAGGTTGTGACATTCTGTGCATATGTGCAAATGACTGTTATATTTTAGGGGTAAGCAAACGCCGTGGGGCTccagaaattatatttttatacacagAATTGTACATTAGATTTTGACCGACCGTTACCTAATCACTTTTCGTTTTTTGAAATAGTGTAAGATACgagaatatattttaatttaaataggtGCAGAGTCTTTGCAGTCTTGTGCTGTTTCTCTTTTAGAAATATCtattattttgttattgcttTGGATGTCGGAGTGGGACAGGCACATGCGCCCCCTGCTCACTCTCCTCTGGTTTCATTGTTTCCTTAAGAAAATACGAAATGCACATTCTGGCCATTGAGTACAGATAATAGTCCCACAGTAAAAGAGCAAAGGGTTTCGTTAAGCAGATTAATGAGTAACTACTGTACGtttactaaaatgtatttttcttttcatattttgtaatAGGTAAATAGttttatagaaataaaatatGCCGCTGATGCACAGTTTGGATAGCATATGATGAGTGGCCATACCAGTTAACCTGCCTTTCATTAAGGCAAGGTGTCAGGAAATGTatagaatttattatttatatgtttattatgaatgaatgagataAAGAAAATATTCAAACTGCTCCTTTGTATGTTTTGTTTCTCTCTTTGACAACGCAGACATTAAACATCTTGGCCTATCGATTCACTGTCACATTACGCTCATACACACTTCATTGTCATTACTGCTGTTTAAAAGTCGACTTTCAGTggctgtttatttaaatattaacaaatcaattcatctttatttctattataGCAATTTACAATGTAGAGTAcgtgtgtcaaagcagcttaatagcAGTTCTAGTCAAgtaaaactgtgtcagttcagttttcagagttgaagttcagtttttaTTAACCAAGCTTCTTGTTCATTGATGTGCTATATTACAGAAGCGTCAAAAGACAATTAATAACACAAGTTCTGTTCaggtaattaattatatttttgcaACAGTTTTCCAGTCTTTTTTTCACGGACATCGGGTGAGCTAGAGTGGGAGAAACAAGAGCTCTTTTCAAACAAACGTGTGTAaatgagaaataaagtcaaatcTTCCTCTTGAAGAGAGCTATCGGTAAGACGCGAAAAAGTCTTTGATCTGGATTTTGTATGCTTGCGAAAAGTTGTGCTCCCATGTTAAATATGAAGAGGACAATCCTTCCTTCACAAATAACATCTGAAAATCTCTCGGCCAGATTAAAAAGCCCCACTGTTGGAGAGCTCTTGACGCGGGGTTGTAGTTAGAAGGAATACCGCTGCTTCTATTAGTTTTGTATCTtaataaaatatcaattaaattGGGTGTAATAACGCCTACACCTACTCAACCCTAAACCTGCCATCACagccattaaaataaaatagaaattattgTTTTAGTGTCACACAATCAGGCTATATTGATGTGCGCATGCCCAGTAGCCGCAGATGTAGGATCCCTTCAGATTTAACAAATTCTGACCTGTACGCCGACGTCTTTTAATCATCGCCACAAGAATCATGTAAAAAATATGCGGCGCAAGTACCGATATAAAATCGACACATGACACATAAAAAGGTTTCCAGTGTGGTTTAACATACATGTAGTTATTTACACGAAGTTTTGAAACAGGTGCGACCAGATGAAACGCTTCGGTTCACATCCAACACAACATCCACGAGTCTCTTTCCCAACTTGCGGTTAAGGTAAGCCCAAACTCTTAGGATCCCTGTTTCCTTTGGTTAAGCCTGAGATGTAATATGTGGCTTCTAGAATCAAACAAGGAAACAACAGCCATCTGATAATGAGCCCCAAACCCGTTTACAAGTTCAGACAGTAGACATGGCAGTAGGCTATACGCGTCTGAAATGAACATCAATCACAGGATTCTCCCGCAGATCCGACTCAAAAAGCGATGTTTTGTAAAGCTGAATGGCCAAATGCCACTCTTTACCAAAACAAAAAAGAGCAAACTTTTACAAACACCTCCCAGATCATGATATCATTCATAAGAGAGTCTCCGCTGAACAATATCATCAATGAGAGTAACAGCCACAGTCGATGTGAACTCAGCTGAGAAAATGAGGATTGAGaacacagaaaaaacaaaacatttgacaCTCTTTGAGACCAATTCTTACAACTACTTTACTGagtacaaaaaacattttaatgttgttttgttaGATGTTCTTTGTGGAAATAGTAGGGGAGAGCAGGGCCGAAAGTACTGTTTCATAAAAaccttatttttaaagaaaatgttttggtAGAAATATATTTTGCTGTGGTTATTAACTCAAAACAATGGTCTATAAATATCTGGTGTTATTTTATATCAATGTAGAACAACTTTAATCTAAGTTCACTTTAAACTAAAGTTGCACATTGTCACTTTACCCCCATCAGCAGAGACGAAAGTAACACAAcatttgctagatttactggtttaatcttttttgttttaactatATCTGATGTTAATcttgttaatgttaactgcaAAGATAATTTGTCCTTTACTTTTGCACAAAAACTAATAAAGGCCATTTTCATTGT

Function

symbol description
shha Predicted to enable calcium ion binding activity and patched binding activity. Involved in regulation of gene expression. Acts upstream of or within several processes, including animal organ development; chordate embryonic development; and neurogenesis. Predicted to be located in plasma membrane. Predicted to be active in extracellular space. Is expressed in several structures, including central nervous system; digestive system; fin; head; and mesoderm. Human ortholog(s) of this gene implicated in several diseases, including Hirschsprung's disease; holoprosencephaly (multiple); hypoplastic or aplastic tibia with polydactyly; middle cerebral artery infarction; and polydactyly. Orthologous to human SHH (sonic hedgehog signaling molecule).

GO:

id name namespace
GO:0042694 muscle cell fate specification biological_process
GO:0001708 cell fate specification biological_process
GO:0032835 glomerulus development biological_process
GO:0030947 regulation of vascular endothelial growth factor receptor signaling pathway biological_process
GO:0048741 skeletal muscle fiber development biological_process
GO:0021536 diencephalon development biological_process
GO:0007507 heart development biological_process
GO:0007224 smoothened signaling pathway biological_process
GO:0001756 somitogenesis biological_process
GO:0007517 muscle organ development biological_process
GO:0043010 camera-type eye development biological_process
GO:0045494 photoreceptor cell maintenance biological_process
GO:0048793 pronephros development biological_process
GO:0048795 swim bladder morphogenesis biological_process
GO:0055002 striated muscle cell development biological_process
GO:0031016 pancreas development biological_process
GO:0042462 eye photoreceptor cell development biological_process
GO:0031018 endocrine pancreas development biological_process
GO:2000223 regulation of BMP signaling pathway involved in heart jogging biological_process
GO:0007267 cell-cell signaling biological_process
GO:0030182 neuron differentiation biological_process
GO:0007275 multicellular organism development biological_process
GO:0042476 odontogenesis biological_process
GO:0048557 embryonic digestive tract morphogenesis biological_process
GO:0060956 endocardial cell differentiation biological_process
GO:0048839 inner ear development biological_process
GO:0016539 intein-mediated protein splicing biological_process
GO:0016540 protein autoprocessing biological_process
GO:0001839 neural plate morphogenesis biological_process
GO:0033504 floor plate development biological_process
GO:0031076 embryonic camera-type eye development biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048618 post-embryonic foregut morphogenesis biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0009953 dorsal/ventral pattern formation biological_process
GO:0008285 negative regulation of cell population proliferation biological_process
GO:0007368 determination of left/right symmetry biological_process
GO:0006508 proteolysis biological_process
GO:0061035 regulation of cartilage development biological_process
GO:0008015 blood circulation biological_process
GO:0035143 caudal fin morphogenesis biological_process
GO:0048663 neuron fate commitment biological_process
GO:0010001 glial cell differentiation biological_process
GO:0010002 cardioblast differentiation biological_process
GO:0007399 nervous system development biological_process
GO:0021984 adenohypophysis development biological_process
GO:0021986 habenula development biological_process
GO:0007411 axon guidance biological_process
GO:1905178 regulation of cardiac muscle tissue regeneration biological_process
GO:0007417 central nervous system development biological_process
GO:0007420 brain development biological_process
GO:0070444 oligodendrocyte progenitor proliferation biological_process
GO:0030900 forebrain development biological_process
GO:0033339 pectoral fin development biological_process
GO:0030902 hindbrain development biological_process
GO:0048702 embryonic neurocranium morphogenesis biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0001947 heart looping biological_process
GO:0048709 oligodendrocyte differentiation biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0021508 floor plate formation biological_process
GO:0042063 gliogenesis biological_process
GO:0021520 spinal cord motor neuron cell fate specification biological_process
GO:0005886 plasma membrane cellular_component
GO:0005615 extracellular space cellular_component
GO:0016020 membrane cellular_component
GO:0005113 patched binding molecular_function
GO:0005509 calcium ion binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0008233 peptidase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-980526-166 Predicted to enable calcium ion binding activity and patched binding activity. Involved in regulation of gene expression. Acts upstream of or within several processes, including animal organ development; chordate embryonic development; and neurogenesis. Predicted to be located in plasma membrane. Predicted to be active in extracellular space. Is expressed in several structures, including central nervous system; digestive system; fin; head; and mesoderm. Human ortholog(s) of this gene implicated in several diseases, including Hirschsprung's disease; holoprosencephaly (multiple); hypoplastic or aplastic tibia with polydactyly; middle cerebral artery infarction; and polydactyly. Orthologous to human SHH (sonic hedgehog signaling molecule).

Ensembl:

ensembl_id ENSDARG00000068567

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00066485 True 4551 mRNA 0.43 3 40884012 40893295

Neighbor

gene id symbol gene type direction distance location
XLOC_033963 CU041319.1 coding upstream 13264 40870631 ~ 40870748 (+)
XLOC_033962 lmbr1 coding upstream 175872 40658003 ~ 40708140 (+)
XLOC_033961 mnx1 coding upstream 243006 40638210 ~ 40641006 (+)
XLOC_033959 ptprn2 coding upstream 384626 40228422 ~ 40499386 (+)
XLOC_033960 dre-mir-153a coding upstream 398422 40485510 ~ 40485590 (+)
XLOC_033965 NA coding downstream 69433 40962728 ~ 41104337 (+)
XLOC_033966 AL772146.1 coding downstream 219606 41112901 ~ 41113295 (+)
XLOC_033967 puf60b coding downstream 253265 41146560 ~ 41158143 (+)
XLOC_033968 scrib coding downstream 266930 41160225 ~ 41275897 (+)
XLOC_033969 si:dkey-86l18.10 coding downstream 402679 41295974 ~ 41302860 (+)
XLOC_033951 BX908792.2 non-coding upstream 1170238 39713215 ~ 39713774 (+)
XLOC_033931 BX957297.4 non-coding upstream 2205480 38678418 ~ 38678532 (+)
XLOC_033929 BX957297.3 non-coding upstream 2234483 38649136 ~ 38649529 (+)
XLOC_033975 BX005319.1 non-coding downstream 566358 41459653 ~ 41460435 (+)
XLOC_033976 BX005319.2 non-coding downstream 689249 41582544 ~ 41582659 (+)
XLOC_033978 AL928906.1 non-coding downstream 867966 41761261 ~ 41761379 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000026_12203244_12209526 SHH, SHHA coding CI01000026 null 12201358 ~ 12209698 (+)
bowfin (Amia calva) AMCG00019852 NA coding CM030124.1 CM030124.1 49523139 ~ 49533144 (+)