CI01000314_00003811_00027858 (VPS39)


Basic Information

Item Value
gene id CI01000314_00003811_00027858
gene name VPS39
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000314
NCBI id null
chromosome length 1736912
location 3783 ~ 27858 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000314_00003811_00027858.mRNA
CTGCCAGCAGATTCTACAGTGGTCGGCCTTTTTATTTTCTATTTTACCATTTTTGGTTATTTATCTACGTGTGTTTGCTAGTACATAAGAGCTCCAGTATGCATGACGCATATGAACCGGTTCCTATTCTGGAGAAATTACCCCTGCAGATTGACTGTCTGGCGGCATGGGATGATTGGCTCCTTGTCGGGACCAAACCGGGTCATCTCCTTCAGTACAGGATCAAGAAAGATGCAGGCACAAATAGGTTTGAAGTTACATTAGAGAAATCCAATAAGAACTTCTCAAAGAAGATTCAGCAGCTGTTTGTGGTTTCGCAGTACAAGATTTTGGTTAGTCTTTTGGAAAATAACATCCACGTTCATGACTTGCTGACGTTCCAGCAGATAACTGTGGTGTCCAAAGCCAGAGGGGCCACACTGTTTGCCTGTGACCTGCAGAAGTCCAGCTCAGGTGAGGCCAAACTGCGCATGTGTGTTGCAGTCAAGAGGAAGATTCAGCTGTATTACTGGAAGGACAGAGAATTCCATGAATTACAGGGAGATTTTGCCGCTCCAGACATTCCCAAGTCCATGGCTTGGTGTGAGAACTCTATATGCGTGGGTTTCAAACGAGACTACTATCTGATTCGGATGGACGGACGTGGCACAGTCAAGGAACTGTTCCCCACGGGGAAACAGCTGGAACCATTGGTGGCCCCATTGGCTGATGGGAAGGTAGCGGTGGGTCAGGATGACCTCACGGTTGTTTTGAACGAAGAAGGTGTCTGCACTCAGAAATGTGCCCTTAACTGGACAGACATTCCTGTTGCGATGGAGCACCAGCCACCGTACATCATTGCAGTGTTGCCACGGTATGTGGAGATCCGCACCCTCGAGCCCAGACTGCTGGTGCAGAGCGTAGAGCTGCAGAGACCACGTTTCATCACCTCTGCTGGATCAAATGTTGTCTATGTCGCTAGCAATCATTTTGTTTGGCGTCTGGTGCCGGTCTCTATAGCCAGCCAGATACGGCAGCTGCTACAGGACAAACAGTTTGAACTGGCGCTTCAGCTAGCGAAAATGAAGGATGATTCAGATGCAGACAAGAGACAACAGATCCATCACATTCAGAACCTGTATGCCTTCAACCTGTTCTGTCAGAAGCGCTTTGACGACTCCATGCAGGGGTTTGCCAAGTTAGGCACAGATCCCACTCATGTTATAGGACTGTATCCAGACCTCCTTCCCTCTGATTACCGCAAACAGCTGCATTACCCCAACCCTCTGCCCGCACTGTCTGGAGCCGAGCTGGAGAAAGCCCACCTAGCACTCATAGACTACCTGACACAGAAACGCAGTCATTTAGTGAAGCAGCTAAATGACTCTGACCCCTCTACCACCTCCCCTCTCATGGAGGGAACCCCCACCATCAAGAGCCGCAAGAAACTCCTTCAGATCATCGATACCACCCTGCTCAAATGTTACCTCCATACCAATGTAGCCTTGGTGTCGCCTCTCCTGCGCCTGGAGAACAACCACTGTCACATAGAGGAGAGCGAGTACGTGTTAAAGAAAGCTCATAAATACAGCGAACTCATCATCCTCTACGAGAAGAAAGGCCTTCACCAGAAAGAAGAGAATACTGATGAGGACCAGGCCGGTTCAATTGACTTACAGAAGTGTGATTGTCCAGCTCTGCAGGTTCTGCTGGATCAGTCTACTAAAGCCAACTCTCCCCTGAAGGGACATGAGAGGACTGTACAGTATCTTCAGAGGCTGGGTGTGGAGAACCTGGGCATCATATTTGAGTTTTCACCGTGGGTTCTGAAGATTTGTCCCGAGGATGGACTGAAGATCTTCACTGAGGACCTGACAGAGGTGGAGACTCTACCCAGGGATAAGGTATTGAACTTCCTGAAGGAGGGGTTCAAGGAGCTGGCCATCCCATACCTGGAACACATCATTTACATGTGGGAAGAGACACGGCCCGAGTTCCACAATGTTCTGATCCAGCTGTACCTGGAGAAGGTGCAAGGCCTCATGAAAGTGTACCTCAACTCACTGCCTGAAGGTGTTTCAGCTGTAGCTGCAGGAAAGGAGGCGGGAGAGCTGGGAGAATTCAGGAACAAGCTTCTGACATTTCTGGAAGTTTCCAGCAGCTATGAGCCAGAGAGACTCATCAGTGATTTCCCATTTGATGGTCTGTTGGAGGAGAGGGCTCTGCTCTTGGGTCGTATGGGGAAACATGAGCAGGCTCTCTTCATCTATGTTCACATTCTGAAAGACACGCGTATGGCTGAAGAGTACTGCCACAGTCATTATGATCTAACAGCAAACGGCAATAAAGATGTGTATCTGTCCCTCCTGCGCATGTATCTGTCTCCTCCGGATGTGCACTTCCTCGGCCCCATTAAGATGGAGTTATGTGAGCCACAAGCGAACCTCCAGGCGGCCCTGAACGTTCTTCAGCTCCACCACAGCAAACTGAACACCACCAAAAGAGATACAATTCCTGATCAGAACTCTCCAAACCACATGGCGACACTCATGGTGTTTTTCTCTGTCTTTCATAAGGCCATAAACCTGCTGCCAGCCAACACACAGATCCGCGAGATCAAGGTCTTCCTGGAGAATGTGTTGGAGGAGAAGGCTGGAAGGAAGCGCTTTGACCAGGTCATGAAGAGCCTCCTACAGGCTGAGTTCCTGCGGGTGCAGGAGGAACGTATCTTTCACCAGCAGGTGAAGTGCGTCATCACAGATGAAAAGACCTGCAGAGTGTGCAAGAAGAAGATCGGAAATAGGTGTGCCTAGCATTATTGCATTTCATTTACGTAATACA

Function

symbol description
vps39 Acts upstream of or within developmental pigmentation; eye development; and vesicle-mediated transport. Predicted to be active in cytoplasm and membrane. Is expressed in brain; digestive system; head; and integument. Orthologous to human VPS39 (VPS39 subunit of HOPS complex).

GO:

id name namespace
GO:0030897 HOPS complex cellular_component

KEGG:

id description
K20183 VPS39, VAM6; Vam6/Vps39-like protein vacuolar protein sorting-associated protein 39

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000314_00003811_00027858.mRNA True 2820 mRNA 0.49 24 3783 27858

Neighbor

gene id symbol gene type direction distance location
CI01000314_00314539_00325075 NA coding upstream 286370 314228 ~ 325950 (-)
CI01000314_00328906_00331255 NA coding upstream 300741 328599 ~ 331817 (-)
CI01000314_00345636_00351713 NA coding upstream 317351 345209 ~ 353842 (-)
CI01000314_00357634_00433275 RALGAPA2 coding upstream 328199 356057 ~ 433359 (-)
CI01000314_00660252_00661614 NKX2.1A, NKX2.4A, NKX2-4 coding upstream 631980 659838 ~ 662300 (-)
G445339 NA non-coding upstream 33519 61377 ~ 63251 (-)
G445341 NA non-coding upstream 38617 66475 ~ 76605 (-)
G445338 NA non-coding upstream 60403 88261 ~ 118718 (-)
G445658 NA non-coding upstream 239339 267197 ~ 267516 (-)
G445662 NA non-coding upstream 240602 268460 ~ 281164 (-)
CI01000314_00916594_00919809 NA other upstream 888272 916039 ~ 920514 (-)
CI01000314_01617434_01617974 CGA other upstream 1588932 1616790 ~ 1618284 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
bowfin (Amia calva) AMCG00000053 vps39 coding CM030141.1 CM030141.1 991040 ~ 1042603 (+)