LOC122355892 (foxc1,foxc1a,LOC107745890,LOC107576425,LOC107726170,LOC107563085,LOC105019236)


Basic Information

Item Value
gene id LOC122355892
gene name foxc1,foxc1a,LOC107745890,LOC107576425,LOC107726170,LOC107563085,LOC105019236
gene type misc
species tiger barb (Puntius tetrazona)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_056700.1
NCBI id CM032069.1
chromosome length 25613461
location 4909129 ~ 4911176 (+)
genome version ASM1883169v1_2021_tiger_barb_Genome

Sequence

>TU14282
CGATGCTCAGCGTTCAGAAGTTTTCCGATGCGCGCTGCGACAGACAGAGGCGGCCAGAACGCGAGTCCGATCCACTAGTCGCGTTTTGTAAACACGGTGGCATAGAGTGTGGACTCTCGGGCGGACTTTCGGAGGAGTTTGCGGATCGCTTCAGACTTCTTGACGTCCTGTTTGGAGAGAAGTCATGCAGGCGCGCTATTCCGTCTCCAGTCCCAACTCGCTGGGAGTCGTGCCGTACATCAGCAGCGACCAGAGCTATTACCGGGCCGCCGCCGGAGGGGGGTACACCGGGATGCCAGCCCCGATGAGCATGTACTCTCACGCGGCCCACGAGCAGTACCCCGCCAGCATGGCGAGGGCGTACGGACCGTACACTCCGCAGCCGCAGCCCAAGGATATGGTGAAACCTCCGTACAGCTACATCGCGCTCATCACCATGGCCATCCAGAACTCCCCGGACAAGAAGGTGACCCTAAACGGCATCTACCAGTTCATCATGGAGCGCTTTCCCTTCTACAGGGACAACAAGCAAGGCTGGCAGAACAGCATCAGGCACAATCTGTCCCTGAACGAGTGCTTTGTCAAAGTGCCCCGCGATGACAAAAAGCCCGGCAAAGGCAGCTACTGGACCCTGGACCCGGACTCGTATAACATGTTCGAGAA
>TU14284
CGGTGACCGATGCTCAGCGTTCAGAAGTTTTCCGATGCGCGCTGCGACAGACAGAGGCGGCCAGAACGCGAGTCCGATCCACTAGTCGCGTTTTGTAAACACGGTGGCATAGAGTGTGGACTCTCGGGCGGACTTTCGGAGGAGTTTGCGGATCGCTTCAGACTTCTTGACGTCCTGTTTGGAGAGAAGTCATGCAGGCGCGCTATTCCGTCTCCAGTCCCAACTCGCTGGGAGTCGTGCCGTACATCAGCAGCGACCAGAGCTATTACCGGGCCGCCGCCGGAGGGGGGTACACCGGGATGCCAGCCCCGATGAGCATGTACTCTCACGCGGCCCACGAGCAGTACCCCGCCAGCATGGCGAGGGCGTACGGACCGTACACTCCGCAGCCGCAGCCCAAGGATATGGTGAAACCTCCGTACAGCTACATCGCGCTCATCACCATGGCCATCCAGAACTCCCCGGACAAGAAGGTGACCCTAAACGGCATCTACCAGTTCATCATGGAGCGCTTTCCCTTCTACAGGGACAACAAGCAAGGCTGGCAGAACAGCATCAGGCACAATCTGTCCCTGAACGAGTGCTTTGTCAAAGTGCCCCGCGATGACAAAAAGCCCGGCAAAGGCAGCTACTGGACCCTGGACCCGGACTCGTATAACATGTTCGAGAA
>XM_043254486.1
GACCGATGCTCAGCGTTCAGAAGTTTTCCGATGCGCGCTGCGACAGACAGAGGCGGCCAGAACGCGAGTCCGATCCACTAGTCGCGTTTTGTAAACACGGTGGCATAGAGTGTGGACTCTCGGGCGGACTTTCGGAGGAGTTTGCGGATCGCTTCAGACTTCTTGACGTCCTGTTTGGAGAGAAGTCATGCAGGCGCGCTATTCCGTCTCCAGTCCCAACTCGCTGGGAGTCGTGCCGTACATCAGCAGCGACCAGAGCTATTACCGGGCCGCCGCCGGAGGGGGGTACACCGGGATGCCAGCCCCGATGAGCATGTACTCTCACGCGGCCCACGAGCAGTACCCCGCCAGCATGGCGAGGGCGTACGGACCGTACACTCCGCAGCCGCAGCCCAAGGATATGGTGAAACCTCCGTACAGCTACATCGCGCTCATCACCATGGCCATCCAGAACTCCCCGGACAAGAAGGTGACCCTAAACGGCATCTACCAGTTCATCATGGAGCGCTTTCCCTTCTACAGGGACAACAAGCAAGGCTGGCAGAACAGCATCAGGCACAATCTGTCCCTGAACGAGTGCTTTGTCAAAGTGCCCCGCGATGACAAAAAGCCCGGCAAAGGCAGCTACTGGACCCTGGACCCGGACTCGTATAACATGTTCGAGAACGGCAGCTTTCTGCGCCGCCGCCGGCGCATCAAAAAGAAAGACGCCTTGAAGGATAAAGAGGAGCGCAACGTCAAAGAAGCGCCTTCCCGCCAGCAGAGCCAGCAGAATCAGCCGAGCCGCGACCAGGAGCAGTCTGGCCCGGGCTCGCAGCCCGTGCGCATTCAGGACATCAAAACCGAGAACGGCACGTCCACGCCTCCGCAGGCCGTTTCGCCGTCGCTCAGAACCGTTCCCAAGATCGAGAGCCCCGACAGCAGCAGCGTATCGAGCGGGAGCCCGCACAGCATCCCGTCCACGCGCTCTCTCAGCCTGGACAGCGccgggcagcagcagcagcagcagcagcagcatcaccACCAGGGCCAGGGCCAGGCCGCGGCGCAGGGCTTCAGCGTGGATAACATCATGACCTCCCTCCGCGGCTCCCCTCAGAGCTCCGGCGAGCTCACCCCGTCTCTCGTGGCGCCCTCGCGGACAGGCATAACCCCCGCGTTGTCCCTCAACTATTCTCCCAACCAGACGTCCGCGTACAGCTCGCCCTGCAGCCAGAACCCCATCTCGACTACCTCCAACGCCACCTACCATTGCAACATGCAGGCCATGAGCTTGTACGCGGGCGGGGATCGCTCGGGCCACTTGGCCACCACCACCGTGGACGAAACCCTGCCCGATTACTCGATCACGACCACCACGTCGTCCCTAAACCACGGGAACCCTCAGGAGGGCCACCACGCGCACCAAGGCCGCCTCGCGTCGTGGTACCTAAACCAGGCTGGAGACATCGGCCACCTAGGCGCCACGTACCCCGCGCAGCAGCAGAACTTCCACTCGGTTCGAGAGATGTTTGAATCGCAGAGAATCGGTCTGAATAACTCTCCGGTGAACGGGAATAACAGCTGTCAGATGTCGTTTCCCCCGAGCCAGCCCATATACCGCGCGTCGGGGGCTTTCGTGTACGACTGCAGCAAGTTTTGACCAAACAAGTAGCCCGTGTGTCTCTCCCGTTGTCTTTCTCGTGATGGACTGAACGCGAGTTTGTTAAGGACAGTGTTACTTCGAATAACACGTAAGTCTTCTTGGTTTTTGTGCGCTATATGCCGGGCTGTGTTGACGCGCGTCAGACGTTTGTGGACTTGTTATTACGTGTAAATTGCatatagtaatttatttctaaagtGTAGCCGGATATTACGGACCAAAACACCAGACAGTGTTTCTGAATCGAACTGCATTCATCGTCCAGATGTTCCACTATAGCGAGGAACGGAACATGTATAACGCCATATTCTTGCAAATTATCTCCTTTTGTTGAAAAAGTATTCTGAAGGatctgcattgttttgtttaataaattgccATGCTATTTGAGTTAAAA

Function

symbol description
foxc1a Enables chromatin binding activity. Acts upstream of or within with a positive effect on vascular associated smooth muscle cell differentiation. Acts upstream of or within several processes, including animal organ development; regulation of signal transduction; and vasculature development. Predicted to be located in nucleus. Is expressed in several structures, including cardiovascular system; head; mesenchyme; mesoderm; and somite. Human ortholog(s) of this gene implicated in several diseases, including eye disease (multiple); lymphedema; lymphedema-distichiasis syndrome; obesity; and type 2 diabetes mellitus. Orthologous to several human genes including FOXC1 (forkhead box C1).
foxc1 Enables DNA binding activity, bending; DNA-binding transcription activator activity, RNA polymerase II-specific; and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including cellular response to epidermal growth factor stimulus; odontogenesis of dentin-containing tooth; and positive regulation of cell differentiation. Acts upstream of or within eye development; heart development; and positive regulation of transcription, DNA-templated. Located in cytosol; heterochromatin; and nucleoplasm. Implicated in Axenfeld-Rieger syndrome; Axenfeld-Rieger syndrome type 3; anterior segment dysgenesis 3; and glaucoma. Biomarker of congestive heart failure and invasive ductal carcinoma.

NR:

description
PREDICTED: forkhead box C1-A-like

GO:

id name namespace
GO:0061386 closure of optic fissure biological_process
GO:0007219 Notch signaling pathway biological_process
GO:0001756 somitogenesis biological_process
GO:0072149 glomerular visceral epithelial cell fate commitment biological_process
GO:0043066 negative regulation of apoptotic process biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0046620 regulation of organ growth biological_process
GO:0043114 regulation of vascular permeability biological_process
GO:0001568 blood vessel development biological_process
GO:0048010 vascular endothelial growth factor receptor signaling pathway biological_process
GO:0039021 pronephric glomerulus development biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0030325 adrenal gland development biological_process
GO:0051090 regulation of DNA-binding transcription factor activity biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0031490 chromatin DNA binding molecular_function
GO:0043565 sequence-specific DNA binding molecular_function
GO:0008134 transcription factor binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0008301 DNA binding, bending molecular_function

KEGG:

id description
K09396 FOXC; forkhead box protein C

RNA

RNA id representative length rna type GC content exon number start site end site
TU14282 False 663 TUCP 0.38 1 4909136 4909798
TU14284 False 670 TUCP 0.43 1 4909129 4909798
XM_043254486.1 True 2042 mRNA 0.57 2 4909133 4911176

Neighbor

gene id symbol gene type direction distance location
foxf2a LOC107671725,LOC107745889,LOC107563086,LOC107685282,LOC107724048 coding upstream 17368 4888123 ~ 4891761 (+)
LOC122328338 foxq1,LOC107685281,LOC107745888,LOC107563088,LOC107671726,LOC107724052 coding upstream 23164 4884610 ~ 4885965 (+)
si:ch211-241e1.3 LOC107671555,LOC107705144,LOC107708592,LOC107565521,LOC107671659 coding upstream 359526 4540052 ~ 4549603 (+)
LOC122323895 LOC107565531,LOC107708594,LOC107671745,LOC100331149,LOC108436854 coding upstream 476410 4423377 ~ 4432719 (+)
LOC122323886 LOC107671547,LOC107565518 coding upstream 486962 4415924 ~ 4422167 (+)
pex5lb pex5lb,LOC107564246,LOC107653517,LOC107660316,LOC107550448,LOC107724753 coding downstream 819429 5730605 ~ 5763859 (+)
gnb4a LOC107705311,LOC107653516,LOC107564248,LOC108440866,LOC107724752,LOC107660315,LOC103030165,LOC107550449 coding downstream 853892 5765068 ~ 5779593 (+)
si:ch1073-184j22.1 si:ch1073-184j22.1,LOC107564249,LOC107653514,LOC107705312,LOC107660327,LOC107550431,LOC107724751,LOC108440865 coding downstream 883050 5794226 ~ 5800871 (+)
sft2d3 sft2d3,LOC107705299,LOC107653510,LOC107737414 coding downstream 895995 5807171 ~ 5808548 (+)
LOC122361161 NA coding downstream 925472 5836648 ~ 5838633 (+)
G9550 NA non-coding upstream 121760 4787046 ~ 4787369 (+)
G9536 NA non-coding upstream 254959 4653956 ~ 4654170 (+)
G9516 NA non-coding upstream 281959 4624762 ~ 4627170 (+)
G9397 NA non-coding upstream 388484 4478309 ~ 4520645 (+)
G9568 NA non-coding downstream 1819 4912995 ~ 4913362 (+)
G9596 crhr2,LOC107660401,LOC107593817,LOC107671670,LOC100335005 non-coding downstream 163673 5074849 ~ 5111570 (+)
G9613 NA non-coding downstream 532358 5443534 ~ 5537567 (+)
G9632 tfr1a,LOC107705306,LOC107653522,LOC107564243,LOC107728405 non-coding downstream 666290 5577466 ~ 5591587 (+)
LOC122357632 NA non-coding downstream 693298 5604474 ~ 5607425 (+)
LOC122361055 LOC107565287,LOC107667819 other upstream 9749 4898372 ~ 4899380 (+)
mylk4a mylk4,LOC107671735,LOC107562868,LOC107708588 other upstream 319302 4572945 ~ 4589827 (+)
G9416 wrnip1 other upstream 339035 4563897 ~ 4570094 (+)
G9361 NA other upstream 686017 4222239 ~ 4223112 (+)
LOC122355245 crhr2,LOC107593817,LOC107660401,LOC100335005,LOC107671670 other upstream 1118790 3756171 ~ 3790339 (+)
G9630 LOC107705308,LOC107564255,LOC107728403 other downstream 697151 5608327 ~ 5609276 (+)
dusp28 dusp28,LOC107737412,LOC107695162,LOC107653509,LOC107705300,LOC107564257 other downstream 912817 5823993 ~ 5826286 (+)
trnag-gcc_20 NA other downstream 1309250 6220426 ~ 6220500 (+)
trnag-gcc_21 NA other downstream 1311269 6222445 ~ 6222519 (+)
sst2 LOC107549725,LOC107710806 other downstream 1456001 6367177 ~ 6367954 (+)

Expression


Co-expression Network