XLOC_012402 (mthfd1b)


Basic Information

Item Value
gene id XLOC_012402
gene name mthfd1b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 49354343 ~ 49412313 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00024339
AGTCAGACAAGTAGAAGAAGAGTTGGGCACGTGCTTTCTGTTAGCAGCACAAACTGCGGAGGACACAACTGCATCTCCTATTTCACAAAACAAGCTCATAAAGTTACACGATGCCTGCTCAGATCATCTGCGGGAAAACCATCTCAGCTCAGGTTCGAGAGAGGCTGAAGGAAGAGGTGGAGGAGATGAAAAAGACTCATCCCAACTTCGAGCCAGGCCTTGTTGTGTTACAGGTGGGAGACAGAGATGACTCAAACTTGTACATTAGCATGAAGCTAAAGGCTGCTGCCCAGATTGGGATCACTGCTGTACATATAAAGCTTCCAAAGACTGCGACCGAGACTGAGGTTTTGCAGAGTGTGACTGAAGTCAACGAGAACTCCAAGATCCATGGGCTCATAGTCCAGCTGCCCCTCGACTCCATCCACACTATTAACACAGAAAGAGTCATCAATTCTGTGGCTCCAGAGAAAGATGTGGATGGTTTGACTAGCATCAATGCAGGGAAACTGGCACGTGGTGATCTTGGAGACTGTTTTATCCCATGTACTCCTAATGGATGTATGGAGCTCATCAAACAAACAGGTGTGTCTTTGGCAGGAAAGAGGGCTGTGGTTATCGGACGCAGTAAGATTGTTGGCGCACCAATGCATGATCTTCTCCTTTGGAATCACGCAACTGTAACAACCTGTCATTCAAAGACTGCAGACTTGGTCTCTGAGGTAGGAAAGGCAGACATCCTGGTGACTGGGATTGGCAAACCAGAGATGGTGCATGGAGATTGGCTGAAGACTGGTGCTGTGGTCATTGACTGTGGAATTAACACTATCGCAGATAGTAGCAGGCCAAGTGGGAAGAGAGTTGTTGGAGACGTTCACTATGACTCTGCCAAAGATCGAGCTGCGTTTATCACTCCTGTGCCTGGAGGAGTTGGCCCAATGACTGTAGCCATGCTCATGAAGAACACAGTATTGAGTGCCAAGCATTTCCTTCAAGCACAAAAACCTGGGAAGTGGACCATAAATTACCCCACACTCAACCTGCTGCGTCCTGTTCCCAGTGATGTGGCCATTTCTCGCTCCTGTGTTCCTAAACCCATCGAGTGTCTTGCTAAGGAAATTGGTCTTCTTTCGGATGAAGTTGAGCTCTACGGCAGGACCAAGGCCAAAGTCCAACTGAAAACCATTGATCGACTGCAGACTCAGCTTGATGGCAAATATGTGGTTGTAACAGGAATTACTCCGACTCCTCTGGGTGAAGGAAAGAGCACCACCACAATAGGGTTGGTTCAAGCTCTCGGAGCTCATCTCAAACTCAATGCATTTGCGTGTGTGCGGCAGCCATCACAAGGCCCAACGTTTGGCATCAAAGGTGGTGCTGCTGGCGGGGGCTATTCTCAAGTCGTTCCCATGGAAGAGTTCAATCTTCATCTGACCGGTGACATTCATGCCATTACTGCAGCCAACAACCTTGTAGCTGCTGCAGTGGATGCTCGTATGTTCCATGAAGCCACGCAGTCTGATAAGGCTCTCTTTAACCGCTTGGTACCGTTGGCTGAGGGTCAGAGGAAGTTTTCCCCGGTTCAGATCAACAGACTTGAaAGACTAGGCATAAAGAAAACAGACCCCAGCACATTAACAGAGGAGGAAATCACGCGCTTCGTCAGGCTGGACATTGACCCCGAGTCTGTCACTTGGCAGCGAGTGCTGGACACAAATGATCGTTTTCTTAGGAAAATCACGATTGGCCAGTCTCCTACTGAGAAGGGCTTCACCAGGACTGCCCAGTTTGACATCACTGTTGCCAGTGAGATTATGGCAGTTTTGGCTCTCACTACCAGCCTGGAGGACATGAAACAGAGGCTAGCCAAAATGGTAGTTGCCACCAGTCGCAGCGGTCAACCTGTCACCACAGAGGACTTGggaGTGTGTGGAGCTCTGACAGTCCTCATGCGAGATGCTATCAAGCCAAACCTCATGCAGACTCTGGAGGGAAACCCTGTGTTTGTTCATGCTGGGCCTTTCGCCAACATTGCACATGGAAACTCCTCAATCTTGGCTGATAAAATTGCTTTGAAACTAGTTGGACCTCAGGGATTTGTGGTCACAGAAGCTGGGTTTGGAGCAGATATTGGAATGGAGAAATTTTTCAACATCAAGTGTCGCTACTCTGGTCTCAAGCCTCATGTTGTGGTGTTGGTTGCTACAGTCCGAGCACTTAAGATGCATGGAGGTGGTCCGACGGTTACTGCAGGCACCCCTCTGCCAAAAGAATATATTGAAGAGAACTTGACTCTGCTGGAAGCTGGATGTGCTAACATGAGGAAACAAGTGGAGAATGCTAAGCTTTTTGGAGTTCCAGTAGTGGTTGCTGTCAATGCTTTCAAGACAGACACACAGGCTGAGCTAAATCTGATCTGCAAGATGGCCAAAGAGGCAGGAGCGTTTGATGCCGTGCCCTGCTCTCACTGGGCTGATGGTGGCGCTGGTGCTGTAGATCTGGCTCGAGCTGTTCAAAGAGCTGCAGACCTGCCCAACAGCTTCCAATTTCTCTATGATGTTCAGTTACCAATAGCAGACAAGATCAGAATCATTGCGCAGAAGATCTATGGTGCAGATGACATTGAACTTCTCCCAGAGGCCCAACAAAAAGTGGAGCGGTACACCAAACAGGGTTTTGCGGATCTGCCCATATGTATGGCCAAAACTCATCTGTCTCTCTCACACGATGCTGAAAAGAAAGGCGTTCCTACTGGATTCGTTCTTCCCATTCGTGACATTCGTGCTAGTGTTGGGGCAGGATTCCTCTACCCGCTTGTTGGCACTATGCCGACTATTCCTGGTCTTCCTACTCGTCCATGCTTCTATGACATTGATCTGGATACTGAGAGTGGAGAGGTCATTGGACTTTTTTAAAAGAGGCCATTTTGTTGGGAGTACAGATATGATGGTCCCTGCAGGATTCCCTCCATTATACTGAAGAGCTCTGTCTTCCTCTCGGATCTGAGATCATTGTTAATGTTGCAATAGAAGAGATGTCCATAATTGTCCTAATGTCATAATTTTTTACACTATTGATCTGTTACATTTGAAAAAATTTTCTAATAAATCCATTTGTGATGAAACGGGAAGAAA
>TCONS_00024340
ATAGTCCAGCTGCCCCTCGACTCCATCCACACTATTAACACAGAAAGAGTCATCAATTCTGTGGCTCCAGAGAAAGATGTGGATGGTTTGACTAGCATCAATGCAGGGAAACTGGCACGTGGTGATCTTGGAGACTGTTTTATCCCATGTACTCCTAATGGATGTATGGAGCTCATCAAACAAACAGTATTTCAGACAAGAAGCAAAGTGGGGGAGAGAGAGGGTAGGgacgggaaatgtcctcgagctgggattcgaactctggacgccctgaagtgctactgcaccatatgtcagcacactaaccactaggctattgtttTTGCCGTTGTGTGCTATATGTCAACTCTTAGCGTCAGTCGCGtatttttcattctccaatcaaaagaaaacagaggcggggtttccgttgaggtgacagcagtatTTGTGCTGTCAAGATGACTTTGGAGACTTTTAAAGATTGAGGAGAGACTTTtagttgctg
>TCONS_00024341
GAGTAACTTAACCTGGGGCCTGTACCATGAAGCTGGACTAGTTGTCTAGCCAGTTCACTTTCAATTTAGATTGCACCAATCTTGGGTTTAAGTCAGGTTCGAGAGAGGCTGAAGGAAGAGGTGGAGGAGATGAAAAAGACTCATCCCAACTTCGAGCCAGGCCTTGTTGTGTTACAGGTGGGAGACAGAGATGACTCAAACTTGTACATTAGCATGAAGCTAAAGGCTGCTGCCCAGATTGGGATCACTGCTGTACATATAAAGCTTCCAAAGACTGCGACCGAGACTGAGGTTTTGCAGAGTGTGACTGAAGTCAACGAGAACTCCAAGATCCATGGGCTCATAGTCC
>TCONS_00024342
AGCACAAACTGCGGAGGACACAACTGCATCTCCTATTTCACAAAACAAGCTCATAAAGTTACACGATGCCTGCTCAGATCATCTGCGGGAAAACCATCTCAGCATGGCTGCGAAAAGATGGCTCCACTTTTAGACTGCTTTCATTCCCTCAGAGGAATCCCTGATGCCATTTTGAAGTGCGTTCTACTTCATCAAGTGAACAAGGGAAGCTTGCATCAACTAGGCAtaggatgataaccgttttcaagTCAGGTTCGAGAGAGGCTGAAGGAAGAGGTGGAGGAGATGAAAAAGACTCATCCCAACTTCGAGCCAGGCCTTGTTGTGTTACA

Function

symbol description
mthfd1b Predicted to enable methenyltetrahydrofolate cyclohydrolase activity and methylenetetrahydrofolate dehydrogenase (NADP+) activity. Predicted to be involved in tetrahydrofolate interconversion. Predicted to act upstream of or within one-carbon metabolic process. Predicted to be active in cytosol. Is expressed in several structures, including anterior neural tube; digestive system; immature eye; nervous system; and optic primordium. Human ortholog(s) of this gene implicated in several diseases, including Down syndrome; cleft lip; developmental cardiac valvular defect; neural tube defect (multiple); and tetralogy of Fallot. Orthologous to human MTHFD1 (methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1).

GO:

id name namespace
GO:0006730 one-carbon metabolic process biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0035999 tetrahydrofolate interconversion biological_process
GO:0005829 cytosol cellular_component
GO:0004477 methenyltetrahydrofolate cyclohydrolase activity molecular_function
GO:0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity molecular_function
GO:0005524 ATP binding molecular_function
GO:0004329 formate-tetrahydrofolate ligase activity molecular_function
GO:0003824 catalytic activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-020905-4 Predicted to enable methenyltetrahydrofolate cyclohydrolase activity and methylenetetrahydrofolate dehydrogenase (NADP+) activity. Predicted to be involved in tetrahydrofolate interconversion. Predicted to act upstream of or within one-carbon metabolic process. Predicted to be active in cytosol. Is expressed in several structures, including anterior neural tube; digestive system; immature eye; nervous system; and optic primordium. Human ortholog(s) of this gene implicated in several diseases, including Down syndrome; cleft lip; developmental cardiac valvular defect; neural tube defect (multiple); and tetralogy of Fallot. Orthologous to human MTHFD1 (methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1).

Ensembl:

ensembl_id ENSDARG00000040492

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00024339 False 3134 mRNA 0.48 28 49354343 49407091
TCONS_00024340 False 487 lncRNA 0.46 3 49401328 49401988
TCONS_00024341 False 349 mRNA 0.47 5 49401982 49412313
TCONS_00024342 True 332 nonsense_mediated_decay 0.46 3 49404062 49407046

Neighbor

gene id symbol gene type direction distance location
XLOC_012401 gpx2 coding downstream 5151 49345771 ~ 49349192 (-)
XLOC_012400 orc3 coding downstream 14662 49313504 ~ 49339681 (-)
XLOC_012398 tfb1m coding downstream 73915 49220126 ~ 49280428 (-)
XLOC_012399 CU695076.1 coding downstream 127024 49227204 ~ 49227319 (-)
XLOC_012397 si:ch1073-80i24.3 coding downstream 409878 48943204 ~ 48944465 (-)
XLOC_012403 znf292a coding upstream 3041 49415354 ~ 49438873 (-)
XLOC_012404 cga coding upstream 26906 49439219 ~ 49443399 (-)
XLOC_012405 CABZ01003476.2 coding upstream 38864 49451177 ~ 49451298 (-)
XLOC_012406 fcf1 coding upstream 44845 49457158 ~ 49481672 (-)
XLOC_012407 NA coding upstream 51996 49464309 ~ 49470669 (-)
XLOC_012395 NA non-coding downstream 435429 48916486 ~ 48918914 (-)
XLOC_012390 NA non-coding downstream 746196 48607713 ~ 48608147 (-)
XLOC_012389 FP236356.2 non-coding downstream 778986 48574770 ~ 48575357 (-)
XLOC_012410 CU929037.3 non-coding upstream 175322 49587635 ~ 49594737 (-)
XLOC_012419 NA non-coding upstream 639858 50052171 ~ 50063437 (-)
XLOC_012432 NA non-coding upstream 1563470 50975783 ~ 50984690 (-)

Expression


Co-expression Network