RNA id: TCONS_00025855


Basic Information

Item Value
RNA id TCONS_00025855
length 3100
RNA type mRNA
GC content 0.51
exon number 17
gene id XLOC_012989
representative False

Chromosome Information

Item Value
chromosome id NC_007129.7
NCBI id CM002902.2
chromosome length 51023478
location 40354998 ~ 40387862 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GAGTTGTTGCGATCCAAATCGCGTAAAGAAAATCACGGATTCAGATGAGgtAACATTTACATAAGTGCAGTACAGGAGGTGTTTGCCCTCTGTGCCAGCGATGGGGTGGCGAGAACTGACGATTGACCTGCTGATACTCCTGCTGGTGGCGTCCCGTCTGGATGCTGTGAGCTTTCCTGAGGACAACATCCCTTTAGACGTTGTGGACAGACACTATGCACGGCAGTACCCGGTGTTTCGTGGACGTCCCTCTGGTAACGAATCTCAGCACAGACTGGACTTTCAGCTGATGACCCAGATACATGATACGCTGTTCATCGCGGGCAGggATCAGGTATATTTGGTGAGTCTGAGGGAGTCCTACAGGAACGAGATCATTCCATACAGGAAGCTGACGTGGCGGTCGGGGCAGGCTGACAGAGAGACGTGCGCCATGAAGGGAAAACACAGAGACGAGTGCCATAATTTCATTAAAGTCCTGGTTCCGAGAAATGATGATCTCGTGTTCATCTGCGGAACAAATGGTTTCAATCCCATGTGCCGTTACTACAGGTTGGATAACCTGGAATTTGATGGGGAAGAGATCAGCGGTTTGGCCCGATGCCCGTTTGACGCTAAGCAGACAAACGTTGCCCTGTTTGCCGATGGTAAGCTGTACTCTGCTACGGTGGCAGACTTCCTGGCTAGCGATGCTGTGATTTATCGCAGTATGGGAGATGGTTCTGCCCTTCGCACTATCAAGTATGACTCCAAGTGGTTGAAAGAGCCACATTTTCTTCACGCTGTGGACTACGGGGATTTTGTCTACTTCTTCTTTAGAGAAATTGCAGCAGAGCACAACAACTTGGGAAAGGCGGTTTACTCCAGAGTGGCTCGGATCTGTAAAAATGACATGGGAGGGTCTCAGCGGGTGCTGGAAAAACACTGGACATCTTTTGTTAAGGCTCGGCTGAACTGTTCCGTTCCTGGAGAATCGTTTTTCTACTTTGACGTCCTTCAGGCCATTACCGATATCATCGACATTAATGGGGTGCCTTCTGTGGTTGGAGTTTTCACCACTCAGTTAAACAGTATTCCTGGATCTGCAGTGTGTGCCTTCTCCATGGTGGACATTGAGAAAGCCTTCCGCGGCCGTTTCAAAGAGCAGAAGACGCCAGATTCAGTGTGGACGCCATTTCCAGAGGAGAAACTGCCCAAGCCCAGACCTGGCTGCTGTGCAGGACACGGTTCAGCAGAGTCCTACAAAACCTCCATCGAGTTTCCAGACGAGACCCTTCAATTCATCAAGTCACACCCACTCATGGACGCCTCGGTCCCCTCCATTGGAGACGAACCGTGGTTCACCAAAACAAGAGTCAGgtACAGACTAACAGCACTTGCAGTTGACAACACGGCAGGACCCCATAAGAATTACACAGTGGTTTTCATCGGCTCAGAAGCAGGCATCGTGCTAAAAGTTCTAGCCAAGACATCCCCGCTGTCTTTGAATGACAGCGTCCTGCTGGAGGAAATTGACGTTTTCAACCAGGCCAAGTGTTTATCCAGCAATGAGGACGATCGGCGAATTTTGTCTTTCCACCTAGATAAAGACAGTCACACACTTTATGTGGCCTTTTCCAGCTGTGTGGTAAGAATACCACTCAGCCGCTGCGAACGACACAGTTCCTGTCAAAAGTCTTGTATTGCTTCAAGAGACCCATACTGCGGATGGATGTCACATGGAGCTTGTGAACGTATTCCTGCAACTATGCAAAGTGGTTATGAGCAAGATGTTGAATATGGCAACACTGCTCACCTCGGGGATTGTCACGGTGTTTGGGAAATACAAGCAGGTGAATCAAACCAGATGGTGCACATGAACATCCTGATCTCCTGTGTGTTAGCTGCGTTTCTGCTTGGTGCATTCATCGCAGGCATGGTTGTTTACTGCTATAGAGATGCGTTTCTTCGCACTCCACGAAAGATCCAAAAAGATGCAGAGTCGGCACAATCCTGCACTGATTCCACTGGCAGCTTTGCCAAGCTTAACGGTCTGTTTGACAGTCCTGTCAAAGAGTACCAGCCTAATTTGGATACTCCCAAACTCTACACCAACCTGTTGAGCAATGGAAGGGAGGTGCCAACCACTGGAGAAACTAAGACTATGCTCCTGAGTGGGCAGCCACCGGAATTAGCAGCACTGCCTACGCCTGAATCCACACCTGTGCTGCAACAGAAGAGCCTCCAGCCCATTAAGAACCAGTGGGAGAGAGCTCATGGAAAGATGAGTGGCTCCCGCAAAGATGCACCACCCAAAAGCCCACAGTACCTTCCCTCTAGTCCACCTCCCCATTCTGCAATCAATCCACACATACCTAGTGCTGTGGTACTGCCTAATGCCACGCATGAAAACAAAGCAGGCTTCAGCACACCAGAGGGGCCTCAAGCAGAAAAGAAGGTCCAGAATAGTGATCAGCATGGTTCCAAATCCGGACGTAAAGACCAGAGGCGAACAGTGGATGCCAGGAATACGTTAAACGACCTCTTGAAACATCTAAATGATAGCAACCCCAAGGCCATCATGGTAGAGATGCCCAAATCTCGACAGCACCTAATGCTGGAACCTATTGTAAGTCCAACAGAGATTCCACCTAAAGTCCCAAGTCGAGAGGCCTCCTTGTATTCTCCGTCTTCCTCGTTACCAAGGAACAGCCCGACCAAGAGAGTGGATGTGCCGACAACGCCAACGTCGCCCACAGGGCATATGGGAACTCTTGAGAGACAGCGGTATCACCGAGGCTCTTCCCAGCGACACTCCATATCCTCGCCGCCCAAAGGGCTGCACTCACCTAGCGGGGCCATAGTGTCCCGGCAACCTAGCATGAACAGAGGTGGGTACATACCCCCCACTCCTACCCCACCCACTAGACTAGACTCTCATGGGGTACCAATGGCAATGACGCCTTCCGTATCCCGACAGAGCAGCTACAGTGGGCATGGATCTTTACCACGAACATCCATTAAAAGGACAGCATCGCTAAAGCCCGATGTGCCACCCAAACCCAACGGCTTTGCACCACAGACTGCACAAATGAGGCCAGTGAACAAGTATAGCTACTGA

Function

GO:

id name namespace
GO:0001755 neural crest cell migration biological_process
GO:0050919 negative chemotaxis biological_process
GO:0048843 negative regulation of axon extension involved in axon guidance biological_process
GO:0007411 axon guidance biological_process
GO:0030335 positive regulation of cell migration biological_process
GO:0071526 semaphorin-plexin signaling pathway biological_process
GO:0005887 integral component of plasma membrane cellular_component
GO:0005615 extracellular space cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0045499 chemorepellent activity molecular_function
GO:0030215 semaphorin receptor binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050417-171 Predicted to enable chemorepellent activity and semaphorin receptor binding activity. Predicted to be involved in several processes, including generation of neurons; neural crest cell migration; and semaphorin-plexin signaling pathway. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in extracellular space. Predicted to be integral component of plasma membrane. Is expressed in several structures, including brain; cranial ganglion; head; midbrain neural keel; and midbrain neural tube. Orthologous to human SEMA6D (semaphorin 6D).

Ensembl:

ensembl_id ENSDART00000049171

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00027144 lncRNA upstream 722973 39621465 ~ 39632025 (+) False XLOC_012984
TCONS_00027145 lncRNA upstream 722973 39621474 ~ 39632025 (+) True XLOC_012984
TCONS_00027143 lncRNA upstream 1181806 39165363 ~ 39173192 (+) True XLOC_012980
TCONS_00027142 lncRNA upstream 1600306 38748613 ~ 38754692 (+) False XLOC_012972
TCONS_00027141 lncRNA upstream 1836397 38489672 ~ 38518601 (+) True XLOC_012971
TCONS_00026926 lncRNA downstream 134423 40518736 ~ 40520628 (+) True XLOC_012994
TCONS_00027146 lncRNA downstream 283754 40668067 ~ 40669736 (+) True XLOC_013002
TCONS_00027147 lncRNA downstream 376328 40760641 ~ 40763051 (+) True XLOC_013003
TCONS_00027148 lncRNA downstream 517585 40901898 ~ 40902607 (+) True XLOC_013004
TCONS_00027149 lncRNA downstream 804426 41188739 ~ 41193714 (+) False XLOC_013006
TCONS_00025853 mRNA upstream 416464 39937225 ~ 39938534 (+) True XLOC_012987
TCONS_00025850 mRNA upstream 692628 39649660 ~ 39662370 (+) False XLOC_012985
TCONS_00025851 mRNA upstream 692824 39649825 ~ 39662174 (+) True XLOC_012985
TCONS_00025849 mRNA upstream 849151 39487486 ~ 39505847 (+) True XLOC_012983
TCONS_00025847 mRNA upstream 924042 39416504 ~ 39430956 (+) True XLOC_012982
TCONS_00025861 mRNA downstream 75817 40460130 ~ 40461725 (+) True XLOC_012990
TCONS_00025862 mRNA downstream 78132 40462445 ~ 40469527 (+) False XLOC_012991
TCONS_00025864 mRNA downstream 83406 40467719 ~ 40469314 (+) True XLOC_012991
TCONS_00025865 mRNA downstream 87513 40471826 ~ 40477865 (+) True XLOC_012993
TCONS_00025866 mRNA downstream 141095 40525408 ~ 40540703 (+) True XLOC_012995
TCONS_00025854 other upstream 331110 40023772 ~ 40023888 (+) True XLOC_012988
TCONS_00025852 other upstream 618495 39736389 ~ 39736503 (+) True XLOC_012986
TCONS_00025838 other upstream 1360231 38985920 ~ 38994767 (+) False XLOC_012976
TCONS_00025819 other upstream 2336980 38017901 ~ 38018018 (+) True XLOC_012967
TCONS_00025818 other upstream 2392101 37962778 ~ 37962897 (+) True XLOC_012966
TCONS_00025863 other downstream 82477 40466790 ~ 40466904 (+) True XLOC_012992
TCONS_00025872 other downstream 249214 40633527 ~ 40636178 (+) True XLOC_013000
TCONS_00025882 other downstream 1127832 41512145 ~ 41526488 (+) False XLOC_013010
TCONS_00025883 other downstream 1127846 41512159 ~ 41520460 (+) False XLOC_013010
TCONS_00025892 other downstream 1198478 41582791 ~ 41585575 (+) True XLOC_013014

Expression Profile

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