RNA id: TCONS_00030462


Basic Information

Item Value
RNA id TCONS_00030462
length 3227
RNA type mRNA
GC content 0.56
exon number 22
gene id XLOC_015160
representative False

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 4074412 ~ 4161277 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TCTCAAAGCTGGCTGAACCGCCAgctaaaagtaacttaaatcgCAACTTTTGCTCGTAAATGACCACCGGCAGGAATAACCGAGTGATGATGGAAGGAGTGGGTGCTCGAGTTATCCGCGGGCCTGACTGGAAGTGGGGGAAGCAGGACGGCGGAGAAGGGCATGTGGGCACCGTCAGGAGCTTCGAGAGCCCggaggaggtggtggtggtgtgggaTAACGGCACCGCCGCCAATTACCGCTGCTCCGGGGCTTATGATGTGAGGATATTGGACAGTGCGCCTACAGGAATCAAGCATGATGGCACCATGTGTGACACCTGTCGGCAGCAGCCCATCATTGGAATCCGATGGAAATGTGCAGAGTGCACCAACTACGACCTCTGTACCACCTGTTACCATGGCGACAAGCACCACCTGCGCCACAGGTTTTACCGCATCACCACCCCTGGCAGTGAAAGAGTTCTTCTGGAGTCTCGTCGCAAGTCGAAGAAGATCACAGCCCGCGGCATCTTTGCAGGAGGACGAGTGGTGCGAGGGGTGGATTGGCAATGGGAGGATCAGGATGGCGGGAATGGAAGAAGAGGGAAGGTGACGGAGATCCAGGACTGGAGTGCTGCCAGCCCCCACAGCGCAGCCTACGTCCTTTGGGACAACGGGGCCAAGAACCTCTACCGAGTGGGATTCGAGGGCATGTCTGATTTGAAATGTGTGCAAGATGCCAAAGGAGGGACTTTTTACAGAGACCACTGTCCAGTATTGGGTGAGCAGAACGGCAACAGGAACCCAGGAGGCCTGCAGATCGGAGACTTGGTCAACATTGATTTGGACCTGGAGATCGTTCAGTCACTGCAGCATGGGCATGGAGGATGGACCGACGGCATGTTCGAGACGCTCACCACCACAGGCACTGTCTGCGGCATCGATGAAGACCACGACATTGTTGTGCAGTATCCTAGCGGAAACAGGTGGACGTTTAACCCAGCGGTGCTGACCAAGGCAAATGTTGTCCGCAGTGGAGAAGTGGCAGCTGGCGCTGAGGGCGGCAGCTCGCAGTTCATGGTGGGAGATTTAGTCCAGATCTGCTACGACATCGACCGCATCAAACTGCTCCAGAGAGGACACGGAGAGTGGGCCGAAGCCATGCTGCCAacccTTGGAAAGGTGGGCAGAGTGCAGCAGATTTACTCTGACAGTGACCTGAAAGTGGAGGTGTGCGGGACGTCCTGGACATACAATCCCGCTGCTGTCACTAAAGTGGCCCCTGCTGGATCTGCGGTTACTAATGCTTCTGGAGCAGTGTTGACAGAGAGTCCTTCTGTGCCCGCAGAGCGCCTGTCTCAGCTCCTCAAGAAACTTTTCGAGACGCAGGAGTCTGGAGACATTAACGAAGAGCTGGTGAAGGCCGCAGCCAACGGTGACCTGGCCAAAGTAGAGGACATCCTGAAGAGACCCGATGTGGATGTGAACGGGCAGTGTGCAGGACACACTGCCATGCAGGCGGCGAGTCAAAATGGCCATGTGGACGTCCTCAAACTGCTGCTGAAACATAGCGTGGATTTGGAGGCGGAGGATAAGGATGGAGATCGAGCTGTCCATCACGCATCCTTCGGGGACGAGGGTTCGGTCATCGAGGTGCTTCATCGAGGCGGTGCTGACCTGAACGCCAGAAACAAGCGCAGACAGACGCCGCTGCACATCGCTGTCAACAAGGGCCATCTGCAGGTGGTCAAGACTTTGCTTGACTTTGGCTGCCACCCCAGTCTGCAGGACTCTGAGGGAGACACACCTCTGCATGATGCCATCAGCAAGAAGCGGGATGACATGCTCTCTGTGCTCCTGGAAGCAGGCGCAGACGTCACAATCACCAACAACAACGGTTTCAATGCGCTCCACCATGCAGCACTGCGAGGGAACCCGAGTGCCATGCGTGTGCTGCTTTCCAAACTGCCACGGCCATGGATAGTGGACGAGAAGAAGGACGATGGCTACACCGCTCTTCATCTGGCTGCGCTCAACAACCATGTGGAGGTGGCCGAGCTACTAGTTCACCAGGGAAATGCCAATTTGGACGTCCAGAATGTTAACCAGCAGACGGCATTACACCTTGCAGTGGAGCGCCAGCACACCCAGATAGTGCGACTTTTGGTAAGAGCCGAGGCAAAGTTAGACGTTCAAGACAAGGACGGAGACACGCCACTGCACGAGGCCCTGCGTCACCACACGCTGTCCCAGCTGCGCCAACTTCAGGACATGCAGGACGTCAGCAAAGTGGAACCCTGGGAGCCCTCCAAAAACACATTGATCATGGGACTGGGCACTCAGGGGGCTGAGAAGAAGAGCGCTGCCTCTATTGCTTGCTTCCTGGCAGCCAACGGAGCTGACCTTACCATCCGTAATAAGAAGGGCCAGTCCCCTCTGGACCTGTGTCCTGACCCCAGCCTCTGCAAGGCCCTAGCTAAATGCCACAAAGAGAAGACAAGCGGGCAGGTTGGCTCTCGAAGCCCGTCTCTAAACAGTAATAATGAGACTCTGGAGGAATGCATGGTGTGCTCGGATATGAAAAGAGACACTCTTTTTGGCCCCTGTGGTCATATCGCCACCTGCTCTCTCTGCTCGCCTCGTGTCAAGAAGTGTCTTATTTGCAAGGAACAGGTTCAGTCCAGAACTAAGATCGAGGAGTGTGTAGTTTGCTCTGATAAAAAGGCAGCGGTGCTCTTCCAGCCCTGTGGTCACATGTGCGCCTGTGAGAacTGTGCGAGTCTGATGAAAAAGTGTGTGCAGTGTCGGGCCGTGGTGGAGCGCCGCACCCCCTTCGTTCTGTGCTGTGGAGGGAAAGGTATGGAGGATGCCACTGATGATGAGGACCTTACAGGGGGCTCTAACTCAATGGCAGGGGGGTCGCAGGATCTTCTCCAGCCCAACAATCTGGCCCTAAGTTGGTCCAGTGGAAATATCCCAGCCTTGCAGAGGGACAAAGACAACACTAATGTCAACGCAGATGTACAGAAGCTGCAACAGCAACTGCAGGATATCAAAGAGCAGACTATGTGCCCGGTGTGTCTGGATCGTCTGAAGAACATGATCTTCATGTGTGGCCACGGCACCTGTCAGCTGTGTGGAGACCGCATGAGCGAGTGCCCGATCTGCCGCAAGGCCATCGAGCGCCGAATCCTGCTTTACTAGAGCGCCGCGTCTGTGTGGTTCTCATAAGCACCTTCCCCGGAT

Function

GO:

id name namespace
GO:0021521 ventral spinal cord interneuron specification biological_process
GO:0030097 hemopoiesis biological_process
GO:0009799 specification of symmetry biological_process
GO:0048731 system development biological_process
GO:0051674 localization of cell biological_process
GO:0002244 hematopoietic progenitor cell differentiation biological_process
GO:0021536 diencephalon development biological_process
GO:0048468 cell development biological_process
GO:0006897 endocytosis biological_process
GO:0021546 rhombomere development biological_process
GO:0045747 positive regulation of Notch signaling pathway biological_process
GO:0034720 histone H3-K4 demethylation biological_process
GO:0007219 Notch signaling pathway biological_process
GO:0007507 heart development biological_process
GO:0006928 movement of cell or subcellular component biological_process
GO:0060113 inner ear receptor cell differentiation biological_process
GO:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0030154 cell differentiation biological_process
GO:0009855 determination of bilateral symmetry biological_process
GO:0048513 animal organ development biological_process
GO:0048514 blood vessel morphogenesis biological_process
GO:0000902 cell morphogenesis biological_process
GO:0048793 pronephros development biological_process
GO:0031290 retinal ganglion cell axon guidance biological_process
GO:0002040 sprouting angiogenesis biological_process
GO:0071599 otic vesicle development biological_process
GO:0003407 neural retina development biological_process
GO:0003408 optic cup formation involved in camera-type eye development biological_process
GO:0016477 cell migration biological_process
GO:0050931 pigment cell differentiation biological_process
GO:0035295 tube development biological_process
GO:0061195 taste bud formation biological_process
GO:0090596 sensory organ morphogenesis biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0030182 neuron differentiation biological_process
GO:0045165 cell fate commitment biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0002064 epithelial cell development biological_process
GO:0048546 digestive tract morphogenesis biological_process
GO:0035315 hair cell differentiation biological_process
GO:0060429 epithelium development biological_process
GO:0048259 regulation of receptor-mediated endocytosis biological_process
GO:0002090 regulation of receptor internalization biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0048856 anatomical structure development biological_process
GO:0070086 ubiquitin-dependent endocytosis biological_process
GO:0048859 formation of anatomical boundary biological_process
GO:0048863 stem cell differentiation biological_process
GO:0021654 rhombomere boundary formation biological_process
GO:0033504 floor plate development biological_process
GO:0031076 embryonic camera-type eye development biological_process
GO:0048869 cellular developmental process biological_process
GO:0048870 cell motility biological_process
GO:0032989 cellular component morphogenesis biological_process
GO:0060216 definitive hemopoiesis biological_process
GO:0001568 blood vessel development biological_process
GO:0016567 protein ubiquitination biological_process
GO:0060218 hematopoietic stem cell differentiation biological_process
GO:0001570 vasculogenesis biological_process
GO:0060485 mesenchyme development biological_process
GO:0048892 lateral line nerve development biological_process
GO:0008284 positive regulation of cell population proliferation biological_process
GO:0051865 protein autoubiquitination biological_process
GO:0048899 anterior lateral line development biological_process
GO:0007368 determination of left/right symmetry biological_process
GO:0014033 neural crest cell differentiation biological_process
GO:0031398 positive regulation of protein ubiquitination biological_process
GO:0061551 trigeminal ganglion development biological_process
GO:0040011 locomotion biological_process
GO:0008593 regulation of Notch signaling pathway biological_process
GO:0001885 endothelial cell development biological_process
GO:0048916 posterior lateral line development biological_process
GO:0007389 pattern specification process biological_process
GO:0048663 neuron fate commitment biological_process
GO:0061053 somite development biological_process
GO:0048665 neuron fate specification biological_process
GO:0048666 neuron development biological_process
GO:0050793 regulation of developmental process biological_process
GO:0010001 glial cell differentiation biological_process
GO:0039022 pronephric duct development biological_process
GO:0007399 nervous system development biological_process
GO:0032501 multicellular organismal process biological_process
GO:0021986 habenula development biological_process
GO:0032502 developmental process biological_process
GO:0048066 developmental pigmentation biological_process
GO:0045664 regulation of neuron differentiation biological_process
GO:0030318 melanocyte differentiation biological_process
GO:0007417 central nervous system development biological_process
GO:0007420 brain development biological_process
GO:0007423 sensory organ development biological_process
GO:0060035 notochord cell development biological_process
GO:0022008 neurogenesis biological_process
GO:0030902 hindbrain development biological_process
GO:0030903 notochord development biological_process
GO:0045685 regulation of glial cell differentiation biological_process
GO:0048699 generation of neurons biological_process
GO:0021508 floor plate formation biological_process
GO:0021510 spinal cord development biological_process
GO:0021514 ventral spinal cord interneuron differentiation biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0021519 spinal cord association neuron specification biological_process
GO:0021520 spinal cord motor neuron cell fate specification biological_process
GO:0048471 perinuclear region of cytoplasm cellular_component
GO:0030139 endocytic vesicle cellular_component
GO:0005815 microtubule organizing center cellular_component
GO:0005856 cytoskeleton cellular_component
GO:0000151 ubiquitin ligase complex cellular_component
GO:0005886 plasma membrane cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0005634 nucleus cellular_component
GO:0031410 cytoplasmic vesicle cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0016740 transferase activity molecular_function
GO:0005515 protein binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0042802 identical protein binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030404-2 Enables identical protein binding activity and ubiquitin-protein transferase activity. Acts upstream of or within several processes, including animal organ development; nervous system development; and tube morphogenesis. Located in endocytic vesicle and perinuclear region of cytoplasm. Part of protein-containing complex. Is expressed in nervous system; neural tube; and pectoral fin. Used to study epilepsy. Human ortholog(s) of this gene implicated in left ventricular noncompaction. Orthologous to human MIB1 (MIB E3 ubiquitin protein ligase 1).

Ensembl:

ensembl_id ENSDART00000163507

JBrowse2

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Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00030452 lncRNA upstream 297767 3774742 ~ 3777346 (+) False XLOC_015156
TCONS_00033461 lncRNA upstream 467712 3606030 ~ 3607401 (+) True XLOC_015155
TCONS_00033229 lncRNA upstream 605100 3468101 ~ 3470013 (+) True XLOC_015149
TCONS_00033228 lncRNA upstream 620946 3452813 ~ 3454167 (+) True XLOC_015148
TCONS_00033460 lncRNA upstream 970384 3100598 ~ 3104729 (+) True XLOC_015143
TCONS_00030473 lncRNA downstream 734994 4894856 ~ 4898290 (+) True XLOC_015166
TCONS_00030488 lncRNA downstream 1566602 5726464 ~ 5729675 (+) False XLOC_015175
TCONS_00033230 lncRNA downstream 1566840 5726702 ~ 5726906 (+) True XLOC_015175
TCONS_00033462 lncRNA downstream 1571265 5731127 ~ 5736505 (+) True XLOC_015176
TCONS_00033463 lncRNA downstream 1681246 5841108 ~ 5852829 (+) False XLOC_015178
TCONS_00030458 mRNA upstream 65913 3986083 ~ 4009200 (+) True XLOC_015159
TCONS_00030457 mRNA upstream 181010 3881000 ~ 3894103 (+) True XLOC_015158
TCONS_00030455 mRNA upstream 208142 3823813 ~ 3866971 (+) False XLOC_015157
TCONS_00030454 mRNA upstream 208143 3823813 ~ 3866970 (+) False XLOC_015157
TCONS_00030465 mRNA downstream 47347 4207209 ~ 4217766 (+) False XLOC_015161
TCONS_00030466 mRNA downstream 47427 4207289 ~ 4217766 (+) False XLOC_015161
TCONS_00030467 mRNA downstream 48461 4208323 ~ 4217887 (+) True XLOC_015161
TCONS_00030469 mRNA downstream 143263 4303125 ~ 4327733 (+) False XLOC_015163
TCONS_00030470 mRNA downstream 143319 4303181 ~ 4353808 (+) True XLOC_015163
TCONS_00030445 other upstream 507154 3565376 ~ 3567959 (+) True XLOC_015153
TCONS_00030434 other upstream 900118 3174870 ~ 3174995 (+) True XLOC_015144
TCONS_00030432 other upstream 1052458 2994052 ~ 3022655 (+) True XLOC_015141
TCONS_00030431 other upstream 1080955 2994052 ~ 2994158 (+) False XLOC_015141
TCONS_00030412 other upstream 1905100 2168582 ~ 2170013 (+) False XLOC_015128
TCONS_00030468 other downstream 121820 4281682 ~ 4288546 (+) True XLOC_015162
TCONS_00030477 other downstream 1220996 5380858 ~ 5389696 (+) True XLOC_015169
TCONS_00030484 other downstream 1427633 5587495 ~ 5677726 (+) False XLOC_015174
TCONS_00030485 other downstream 1441181 5601043 ~ 5677644 (+) False XLOC_015174
TCONS_00030507 other downstream 2096585 6256447 ~ 6258795 (+) True XLOC_015187

Expression Profile

Expression of TCONS_00030462 in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 30.
End of interactive chart.
//

Expression of TCONS_00030462 in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 30.
End of interactive chart.

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000003_01430247_01451033.mRNA True 2450 mRNA 0.49 12 CI01000003 1430247 ~ 1451626 (+)