RNA id: TCONS_00051930



Basic Information


Item Value
RNA id TCONS_00051930
length 794
RNA type mRNA
GC content 0.47
exon number 6
gene id XLOC_026663
representative False

Chromosome Information


Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 40260929 ~ 40276071 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence


CATTTGGCAGTCTTGTATTGATTAATAATGTTTATTCCAGTTCATCAACCATGTCCCAGCTCAACGGTCATACTGAGAAAACATGGGAATCTCATAACAAGATGATGTTGGAGCCTCTGAGCACCAATGATCCTGAGGTGTTTGACATCATAAAGAAGGAGAAGAAGCGTCAGACGTATGGGTTAGAGCTCATTGCTTCTGAAAACTTCACAAGTCGAGCTGTTTTGGAGGCTCTGGGCTCCTGCATGAACAACAAGTACTCTGAAGGTTATCCTGGCCAGAGGTATTATGGAGGCACAGAGCATGTTGATGAGCTGGAGCGTTTGTGTCAGGACCGAGCTTTGAAGGTGTACGGCCTCGACCCGGAGAAATGGGGAGTGAATGTTCAGCCGTACTCTGGGTCGCCCGCAAACTTTGCCGTATACACAGCTATAGTGGAGCCCCATGGGCGAATCATGGGCCTTGATCTGCCAGATGGTGGTCATCTCACTCACGGCTTTATGACTGACAAGAAGAAAATCTCTGCCACGTCCATTTTTTTTGAGTCCATGCCTTATAAGGTCAATCCAGAAACTGGGTACATCGATTATAACAGACTTGAGGAAAATGCTCGTCTCTTCCACCCAAGACTAATCATTGCAGGCACCAGTTGCTATTCCCGAAACTTGGACTACAGTCGGCTGAGAAAGATTGCAGATGAGAACGGAGCGTATCTTCTGGCAGACATGGCTCATATCAGTGGTCTGGTGGCAGCAGGGGTCGTTCCTTCTCCATTTGAATACTGTGATGTTGTT

Function


GO:

id name namespace
GO:1904482 cellular response to tetrahydrofolate biological_process
GO:0019264 glycine biosynthetic process from serine biological_process
GO:0009113 purine nucleobase biosynthetic process biological_process
GO:0006730 one-carbon metabolic process biological_process
GO:0046653 tetrahydrofolate metabolic process biological_process
GO:0046655 folic acid metabolic process biological_process
GO:0051289 protein homotetramerization biological_process
GO:0006544 glycine metabolic process biological_process
GO:0006565 L-serine catabolic process biological_process
GO:0032259 methylation biological_process
GO:0035999 tetrahydrofolate interconversion biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0050897 cobalt ion binding molecular_function
GO:0016740 transferase activity molecular_function
GO:0008168 methyltransferase activity molecular_function
GO:0000900 translation repressor activity, mRNA regulatory element binding molecular_function
GO:0030170 pyridoxal phosphate binding molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0070905 serine binding molecular_function
GO:0016597 amino acid binding molecular_function
GO:0048027 mRNA 5'-UTR binding molecular_function
GO:0004372 glycine hydroxymethyltransferase activity molecular_function
GO:0003824 catalytic activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-1558 Enables glycine hydroxymethyltransferase activity. Predicted to be involved in several processes, including L-serine metabolic process; folic acid-containing compound metabolic process; and protein homotetramerization. Predicted to act upstream of or within methylation. Located in cytosol and nucleus. Is expressed in several structures, including digestive system; immature eye; midbrain; neural tube; and oocyte. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human SHMT1 (serine hydroxymethyltransferase 1).

Ensembl:

ensembl_id ENSDART00000141578

JBrowse2


Neighbor


RNA id RNA type direction distance location representative gene id
TCONS_00051928 lncRNA downstream 16379 40251416 ~ 40251945 (-) True XLOC_026662
TCONS_00053081 lncRNA downstream 86670 40180136 ~ 40181654 (-) True XLOC_026659
TCONS_00051913 lncRNA downstream 316797 39945865 ~ 39951527 (-) True XLOC_026653
TCONS_00051912 lncRNA downstream 572266 39692358 ~ 39696058 (-) True XLOC_026652
TCONS_00053080 lncRNA downstream 705023 39561784 ~ 39563301 (-) True XLOC_026648
TCONS_00053082 lncRNA upstream 120967 40396063 ~ 40405249 (-) False XLOC_026666
TCONS_00051934 lncRNA upstream 120967 40396063 ~ 40405386 (-) False XLOC_026666
TCONS_00053083 lncRNA upstream 127960 40403056 ~ 40405034 (-) True XLOC_026666
TCONS_00051940 lncRNA upstream 252189 40527285 ~ 40529775 (-) False XLOC_026667
TCONS_00051941 lncRNA upstream 252189 40527285 ~ 40529776 (-) False XLOC_026667
TCONS_00051927 mRNA downstream 13690 40235288 ~ 40254634 (-) False XLOC_026662
TCONS_00051926 mRNA downstream 35709 40206031 ~ 40232615 (-) True XLOC_026661
TCONS_00051925 mRNA downstream 65717 40185253 ~ 40202607 (-) True XLOC_026660
TCONS_00051922 mRNA downstream 105457 40153819 ~ 40162867 (-) False XLOC_026658
TCONS_00051932 mRNA upstream 2608 40277704 ~ 40284744 (-) True XLOC_026664
TCONS_00051933 mRNA upstream 21689 40296785 ~ 40301467 (-) True XLOC_026665
TCONS_00051935 mRNA upstream 251011 40526107 ~ 40529782 (-) False XLOC_026667
TCONS_00051936 mRNA upstream 251011 40526107 ~ 40529804 (-) False XLOC_026667
TCONS_00051937 mRNA upstream 251545 40526641 ~ 40528333 (-) False XLOC_026667
TCONS_00051924 other downstream 109637 40154294 ~ 40158687 (-) True XLOC_026658
TCONS_00051921 other downstream 179523 40088685 ~ 40088801 (-) True XLOC_026657
TCONS_00051914 other downstream 310850 39957358 ~ 39957474 (-) True XLOC_026654
TCONS_00051909 other downstream 618762 39649445 ~ 39649562 (-) True XLOC_026651
TCONS_00051900 other downstream 1008647 39238096 ~ 39259677 (-) False XLOC_026643
TCONS_00051938 other upstream 251783 40526879 ~ 40529778 (-) False XLOC_026667
TCONS_00051939 other upstream 251786 40526882 ~ 40529779 (-) False XLOC_026667
TCONS_00051964 other upstream 1036926 41312022 ~ 41312143 (-) True XLOC_026680
TCONS_00051981 other upstream 2590987 42866083 ~ 42866200 (-) True XLOC_026691
TCONS_00052007 other upstream 3806527 44081623 ~ 44094226 (-) False XLOC_026707

Expression Profile


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