RNA id: TCONS_00028129


Basic Information

Item Value
RNA id TCONS_00028129
length 2242
RNA type mRNA
GC content 0.46
exon number 14
gene id XLOC_014117
representative False

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 29808471 ~ 29821601 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGTGCGCAGAAAGCCCGGCAGGCGCAGGCTGTAATTGGAGGGTAAAATGGCGCTGAGTTCTCAAGGAACAAAGAAGAAAGTTTGCTATTATTATGACGGGGATGTCGGGAATTACTACTATGGTCAGGGCCATCCCATGAAGCCCCACAGAATCCGCATGACCCACAACCTTCTGCTCAACTATGGGCTGTATAGGAAAATGGAGATTTATCGACCTCATAAAGCCAATGCGGAAGAAATGACCAAGTACCACAGTGACGACTACATCAAGTTCCTCCGCTCCATCCGCCCAGACAACATGTCCGAGTACAGCAAGCAGATGCAGAGATTTAACGTAGGGGAGGATTGTCCTGTCTTTGACGGCTTATTTGAGTTCTGTCAGCTCTCAACAGGTGGATCTGTTGCTGGTGCGGTGAAACTCAACAAACAGCAGACAGACATTGCCATTAACTGGGCAGGAGGTCTACATCATGCTAAGAAATCAGAGGCATCTGGATTCTGCTATGTCAACGACATTGTACTGGCCATTCTGGAGCTGCTCAAGTACCATCAAAGAGTGCTTTACATCGACATTGACATTCATCACGGTGATGGAGTTGAGGAAGCCTTTTACACAACAGACCGTGTCATGACTGTGTCTTTCCACAAGTATGGAGAGTATTTCCCGGGTACTGGAGACCTCAGAGATATTGGTGCAGGCAAGGGGAAGTATTACGCTGTAAATTACCCGCTCAGGGATGGTATTGATGATGAGTCCTATGAAGCCATATTCAAACCTATCATGTCCAAAGTGATGGAGATGTACCAGCCCAGTGCTGTGGTGCTCCAGTGCGGCGCTGACTCTCTGTCCGGAGATCGATTGGGCTGCTTTAACCTTACCATTAAAGGTCATGCCAAGTGTGTAGAGTACATGAAGAGCTTTAACCTGCCGCTGCTCATGCTGGGAGGTGGAGGCTACACCATTAGAAACGTGGCCCGCTGCTGGACTTTCGAGACAGCTGTAGCACTGGACAGCACCATTCCTAATGAGCTCCCGTACAATGATTACTTTGAGTATTTTGGACCTGACTTCAAGCTCCACATCAGCCCCTCCAACatgaccaatcagaacacaaatgaCTACCTGGAAAAGATCAAGCAGCGTCTGTTTGAGAATCTGCGGATGTTGCCTCATGCTCCAGGCGTTCAGATGCAGGCCATCCCGGAGGATGCAGTTCAGGAAGACAGCGGAGATGAAGAGGACGACCCTGACAAACGCATCTCCATTCGTGCTCACGATAAGCGGATAGCCTGTGATGAAGAGTTCTCAGACTCTGAGGATGAAGGCCAGGGTGGACGGAGAAACGCAGCCAATTACAAGAAGCCAAAACGAGTGAAGACTGAAGAAGAGAAGGATGGAGAAGAGAAGAAAGATGTTAAAGAAGAGGAGAAAGCTTCAGAAGAGAAAATGGACACAAAGGGGCCAAAAGAAGAATTAAAAACAGTGTGAGGTGGGGGAGAAGGACTGCCAGTCCTCCTGGATGCATGTACTTAAGTCGTCAAACACCCTCATCTTCAAACATCAAacccacatttacacacacacacatacacatacatgctAGATGTTAGCTCTAGTCCTGAGCTAAGGACTGTAAATTATTTTGTAAGACTCGTTTTACTATTTGTAATCTAATGAAGCGGTATaaaagtttttacatttacaagtGTGAAATGACCAGATGTTTTTTTGTTTCGTGCTTTGGAACCATGTTTGTTTGCCTCCCTTATGTTACTATTTAGCGACGATAGCACCTCAGACACAGGACCACAAATAGCACATAACTTTACTGTCCCATCATGGGatgcttttttttctcttccccCTCCCCctcaaataattttaaatcatGGATGGAGATACTTATTGGCCGCTCTTACTTGGGTTTTCTCTGCGGATGCTGTTTGGTGTCCGGTGTCCTTTACCTCGTTTTTAAGCGCTAAATGTTTGGTTTTTATTCTGGTGTCTGTCTCTCGATACCTACATCTGTGCGGTGTGTAAGTACTCCGGTATGGTCGGGGCATGGCGAAGGCTTGCTGTATTGCTGTTAGATTCAAGATTTTTCTTTCTGTTGTGCTTTATTCTAGCATGTCAGTCGTGCAGCTGACCAGACATTTAGCCGTTTGGATTTTCCAGAGTTCAGTGGTTGTGAAATGTCCTTATTATAACAATGATTTTGGTAAATAAAGAGAAGTTCTCTGA

Function

GO:

id name namespace
GO:0002244 hematopoietic progenitor cell differentiation biological_process
GO:0006325 chromatin organization biological_process
GO:0033687 osteoblast proliferation biological_process
GO:0001764 neuron migration biological_process
GO:0031017 exocrine pancreas development biological_process
GO:0048263 determination of dorsal identity biological_process
GO:0048565 digestive tract development biological_process
GO:0050673 epithelial cell proliferation biological_process
GO:0021903 rostrocaudal neural tube patterning biological_process
GO:0060218 hematopoietic stem cell differentiation biological_process
GO:0009953 dorsal/ventral pattern formation biological_process
GO:0016575 histone deacetylation biological_process
GO:0031101 fin regeneration biological_process
GO:0008285 negative regulation of cell population proliferation biological_process
GO:0050769 positive regulation of neurogenesis biological_process
GO:0001889 liver development biological_process
GO:0070932 histone H3 deacetylation biological_process
GO:0070933 histone H4 deacetylation biological_process
GO:0048935 peripheral nervous system neuron development biological_process
GO:0030318 melanocyte differentiation biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0060028 convergent extension involved in axis elongation biological_process
GO:0007420 brain development biological_process
GO:0021754 facial nucleus development biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0048706 embryonic skeletal system development biological_process
GO:0048709 oligodendrocyte differentiation biological_process
GO:0016055 Wnt signaling pathway biological_process
GO:0000118 histone deacetylase complex cellular_component
GO:0005634 nucleus cellular_component
GO:0032041 NAD-dependent histone deacetylase activity (H3-K14 specific) molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0004407 histone deacetylase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-020419-32 Enables transcription corepressor activity. Involved in negative regulation of transcription by RNA polymerase II. Acts upstream of or within with a positive effect on secondary heart field specification. Acts upstream of or within several processes, including animal organ development; determination of dorsal identity; and nervous system development. Predicted to be located in nucleus. Predicted to be part of histone deacetylase complex. Is expressed in immature eye; nervous system; pectoral fin; and pharyngeal arch. Orthologous to human HDAC1 (histone deacetylase 1).

Ensembl:

ensembl_id ENSDART00000051799

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00029952 lncRNA upstream 56956 29746138 ~ 29751743 (+) False XLOC_014115
TCONS_00029953 lncRNA upstream 56956 29750095 ~ 29751743 (+) True XLOC_014115
TCONS_00029949 lncRNA upstream 201696 29459117 ~ 29607003 (+) False XLOC_014114
TCONS_00028144 lncRNA downstream 769218 30587866 ~ 30589951 (+) False XLOC_014124
TCONS_00028143 lncRNA downstream 769218 30587866 ~ 30589951 (+) True XLOC_014124
TCONS_00029723 lncRNA downstream 906348 30724996 ~ 30725703 (+) True XLOC_014127
TCONS_00029955 lncRNA downstream 981404 30800052 ~ 30801988 (+) True XLOC_014128
TCONS_00029956 lncRNA downstream 1013642 30832290 ~ 30836205 (+) True XLOC_014129
TCONS_00028127 mRNA upstream 7887 29798106 ~ 29800812 (+) True XLOC_014116
TCONS_00028126 mRNA upstream 8494 29798064 ~ 29800205 (+) False XLOC_014116
TCONS_00028125 mRNA upstream 444920 29337789 ~ 29363779 (+) True XLOC_014113
TCONS_00028124 mRNA upstream 474832 29303847 ~ 29333867 (+) True XLOC_014112
TCONS_00028116 mRNA upstream 1474544 28291440 ~ 28334155 (+) False XLOC_014108
TCONS_00028133 mRNA downstream 35575 29854223 ~ 29860218 (+) False XLOC_014118
TCONS_00028135 mRNA downstream 35634 29854282 ~ 29857036 (+) False XLOC_014118
TCONS_00028137 mRNA downstream 569351 30387999 ~ 30399178 (+) False XLOC_014119
TCONS_00028138 mRNA downstream 569538 30388186 ~ 30399876 (+) True XLOC_014119
TCONS_00028139 mRNA downstream 604469 30423117 ~ 30428901 (+) True XLOC_014120
TCONS_00028123 other upstream 487816 29303847 ~ 29320883 (+) False XLOC_014112
TCONS_00028122 other upstream 605442 29203142 ~ 29203257 (+) True XLOC_014111
TCONS_00028118 other upstream 1474535 28331227 ~ 28334164 (+) True XLOC_014108
TCONS_00028117 other upstream 1477602 28321679 ~ 28331097 (+) False XLOC_014108
TCONS_00028114 other upstream 1492746 28291376 ~ 28315953 (+) False XLOC_014108
TCONS_00028134 other downstream 35601 29854249 ~ 29860206 (+) False XLOC_014118
TCONS_00028136 other downstream 40388 29859036 ~ 29860334 (+) True XLOC_014118
TCONS_00028142 other downstream 699807 30518455 ~ 30518573 (+) True XLOC_014123
TCONS_00028145 other downstream 812295 30630943 ~ 30631060 (+) True XLOC_014125
TCONS_00028149 other downstream 1061140 30879788 ~ 30882456 (+) True XLOC_014131

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00011022 True 2696 mRNA 0.43 14 CM030133.1 7985281 ~ 7994619 (-)