XLOC_011122 (khdc4)


Basic Information

Item Value
gene id XLOC_011122
gene name khdc4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 54785264 ~ 54800202 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00021651
ATGAATGCTGCGCGTGCGCGAGGGTAGCGGAAGTGACGGGCGTATGCGTTTCCGTCGGCTGTTTTGCTGGAGCGTCAGAAACGGAGCGTTTCCACTCGATTAATCAAGAGCAGAAGATTAAACTGAAGACATCAGATGTCATTCGGTGTTCCGCACAGCGGCGGcaGTCGGCGCAGTAAGTGGGATCAGGCAGGTCCGGATGCTGATGCAGGCTCCGCCCCCACTGGAGCTCTGGATGCTGCCGCTGCCGTCGCCGCCAAGATCAACGCCATGCTGGTGGCCAAAGGCAAACTCAAGCCCTCGCAGATCAGCAGCGCAGCGCCCGTCgacaaggctgcAGGTGCTGGTGGTAATAAGCTGAAGGATGATCTGGTGGTGGCGGAGGTGGAGATCAACGATGTCCCGCTCACCTGTCGAAACCTGCTGACCCGCGGACAGACTCAAGATGAGatcagCAGAGTGAGCGGTGCTGCTgtgtccaccagagggcgcttcATGACAGTGGAGGAGAAGAGTAAAGCTCTGCCCAGTGACCGCCCGCTGTATCTGCATGTCCAGGGACAGACCAGAGACCTGGTGGACAaggctGTTAACCGCATTAAGGAGATCATCACTAACGGTGTGGTGAAAGCGGCCACAAACTCCACCTACAGCGGAGCCACGGTCACCGTTTACCAGCAGAGCGGACCCTCAGTACCCACAATCCCCTCTGCTCCACACAAACCACACTATCCAGGAGgaatgcaCTATGTCCAGGATAAGGTGTTTGTGGGTCTGGACCAGGCGCTGCAGGGCTTCAATGTGAAGGAGCGTGTGGAGGGCCCGAGCTGCTCGTTCCTGCAGCACATCCAGGCCGAGACCGGGGCCAAAGTCTTCCTGCGGGGGAAAGGCTCCGGCTGCCTGGAGCCCGCGTCCGGGAGGGAGGCCTTCGAGCCCATGTACATCTACATCAGCCACCCCAAACCTGAAGGACTGGCTTCTGCAAAGACCCTGTGTGAAAACCTCCTGCAGACCgTCCATGCAGAGTATTCCCGTTACCTGAATCAGATGAGCAGCATGATGCCGACTCagggattcATTCATCCTCCTGTTGTTAACGGACTCCCGCCGCAGCCCCCGTATTACTCTCCTGCAGGTTTCCAGCCGTCCTATCCCGCGCCCGTCCCGCCGCCGCCGCCACCCATCGCTCCTCAGTATCCTGTGGCTCCTGTGGCCCCGGCCCCTGTTCCCCCTCCAAACGCACAGTATCCCATCACACCGGTGCCTGCACACGTCCCCACACAGACTCTACTTCCTGCTGCGTTCCCGCCCACTGCTCCGGTTCCGCCCAAACTCACGGCTCCGCCCAACCCGCCACAGAAGCGGCGCTTCACTGAGGAGGTGGACGAGATGGACCGTGGCCTTCTGGGATACCAGCATGGACCCATTCATATGACTAATTTAGGTGCAGGCATGCCTGTGGGCAGCTCAGAGACGTCCGGACCCCCATCTGCTGCTTCCTCAGTGcccgtgagagagagagacagcagcagacagCTCATGCCGCCTCCGTGTGCTCCAGCGCTGCTCAAGCCTCTGAGACCTCTGAAAGCAGACGAGAGTCCATCAGCGCCGAGCCTTCTGGAGCCGCAGGTGAAGCGCATGCGGACGGGGCTGGTGGCGTACGCTGGAGACTCCTCAGATGAAGAAGAGGATCATGGGCCGTCCAGAGCCGCCGTCACTGCAGCAGGTAATGCGGGCGCAGGCTGGAACCCGTACCGCTGCCCGCCGTCCCCCCCACACCGGCCCAAAACACAGACTGCACCGCAGCCGACGCAGCAGAACATGCCCTTCTGGATGGCgccgtaaacacacacacacacacacacacacacagactgactGACAGCAGCAGCGTGACCATCGGCCTCAGAGAGGATCATGTGATGAGGATGAGGAGGGACTGACCGCAGCTCATCCTCTTTTAAACGCTCGGGTTCTGCTTTGCTTTGTGATGTTTCCTCTTCCTCTGtgactaataaacacacacacacacacaccttta
>TCONS_00021652
ATGAATGCTGCGCGTGCGCGAGGGTAGCGGAAGTGACGGGCGTATGCGTTTCCGTCGGCTGTTTTGCTGGAGCGTCAGAAACGGAGCGTTTCCACTCGATTAATCAAGAGCAGAAGATTAAACTGAAGACATCAGATGTCATTCGGTGTTCCGCACAGCGGCGGcaGTCGGCGCAGTAAGTGGGATCAGGCAGGTCCGGATGCTGATGCAGGCTCCGCCCCCACTGGAGCTCTGGATGCTGCCGCTGCCGTCGCCGCCAAGATCAACGCCATGCTGGTGGCCAAAGGCAAACTCAAGCCCTCGCAGATCAGCAGCGCAGCGCCCGTCgacaaggctgcAGGTGCTGGTGGTAATAAGCTGAAGGATGATCTGGTGGTGGCGGAGGTGGAGATCAACGATGTCCCGCTCACCTGTCGAAACCTGCTGACCCGCGGACAGACTCAAGATGAGatcagCAGAGTGAGCGGTGCTGCTgtgtccaccagagggcgcttcATGACAGTGGAGGAGAAGAGTAAAGCTCTGCCCAGTGACCGCCCGCTGTATCTGCATGTCCAGGGACAGACCAGAGACCTGGTGGACAaggctGTTAACCGCATTAAGGAGATCATCACTAACGGTGTGGTGAAAGCGGCCACAAACTCCACCTACAGCGGAGCCACGGTCACCGTTTACCAGCAGAGCGGACCCTCAGTACCCACAATCCCCTCTGCTCCACACAAACCACACTATCCAGGAGgaatgcaCTATGTCCAGGATAAGGTGTTTGTGGGTCTGGACCAGGCGCTGCAGGGCTTCAATGTGAAGGAGCGTGTGGAGGGCCCGAGCTGCTCGTTCCTGCAGCACATCCAGGCCGAGACCGGGGCCAAAGTCTTCCTGCGGGGGAAAGGCTCCGGCTGCCTGGAGCCCGCGTCCGGGAGGGAGGCCTTCGAGCCCATGTACATCTACATCAGCCACCCCAAACCTGAAGGACTGGCTTCTGCAAAGACCCTGTGTGAAAACCTCCTGCAGACCgTCCATGCAGAGTATTCCCGTTACCTGAATCAGATGAGCAGCATGATGCCGACTCagggattcATTCATCCTCCTGTTGTTAACGGACTCCCGCCGCAGCCCCCGTATTACTCTCCTGCAGGTTTCCAGCCGTCCTATCCCGCGCCCGTCCCGCCGCCGCCGCCACCCATCGCTCCTCAGTATCCTGTGGCTCCTGTGGCCCCGGCCCCTGTTCCCCCTCCAAACGCACAGTATCCCATCACACCGGTGCCTGCACACGTCCCCACACAGACTCTACTTCCTGCTGCGTTCCCGCCCACTGCTCCGGTTCCGCCCAAACTCACGGCTCCGCCCAACCCGCCACAGAAGCGGCGCTTCACTGAGGAGGTGGACGAGATGGACCGTGGCCTTCTGGGATACCAGCATGGACCCATTCATATGACTAATTTAGGTGCAGGCATGCCTGTGGGCAGCTCAGAGACGTCCGGACCCCCATCTGCTGCTTCCTCAGTGcccgtgagagagagagacagcagacagCTCATGCCGCCTCCGTGTGCTCCAGCGCTGCTCAAGCCTCTGAGACCTCTGAAAGCAGACGAGAGTCCATCAGCGCCGAGCCTTCTGGAGCCGCAGGTGAAGCGCATGCGGACGGGGCTGGTGGCGTACGCTGGAGACTCCTCAGATGAAGAAGAGGATCATGGGCCGTCCAGAGCCGCCGTCACTGCAGCAGGTAATGCGGGCGCAGGCTGGAACCCGTACCGCTGCCCGCCGTCCCCCCCACACCGGCCCAAAACACAGACTGCACCGCAGCCGACGCAGCAGAACATGCCCTTCTGGATGGCgccgtaaacacacacacacacacacacacacacagactgactGACAGCAGCAGCGTGACCATCGGCCTCAGAGAGGATCATGTGATGAGGATGAGGAGGGACTGACCGCAGCTCATCCTCTTTTAAACGCTCGGGTTCTGCTTTGCTTTGTGATGTTTCCTCTTCCTCTGtgactaataaacacacacacacacacaccttt
>TCONS_00021653
GGCATGCCTGTGGGCAGCTCAGAGACGTCCGGACCCCCATCTGCTGCTTCCTCAGTGcccgtgagagagagagacagcagcagcagacagCTCATGCCGCCTCCGTGTGCTCCAGCGCTGCTCAAGCCTCTGAGACCTCTGAAAGCAGACGAGAGTCCATCAGCGCCGAGCCTTCTGGGTAagccctgacacacacacacacacacacacacacattcacacacactctctctcacacatgcacatattccctctttctcacacacacacacacacactctctctctctctctctgtctttcacatacactcactcactcacacacacacacacacacacacacacacacacacacatacatattcacacacactctctcacacatgcacatattccctctttctcacacacacacacacacacacacacacacacacactctctctctctctgtctttcacatacactcactcactcacacacacacacacacacacactcactctctctcacacacacacactcctccatcAGGCTGATGCTTTCTGCATGCAGATAGCGGCTGCAGCAGCGGCGGACTGTTTCTCTAGATTAAAGGTACAGCTGAAGCGTgcgtgagtgtctgtgtgtgtgtgtgtgagagcgagtGTGTGCGCGCTTCAGCTCGTAGATTAGCTGTGGAGGCTCTCCCCtgcgcgtctgtgtgtgtgtgtgtgaccgcaGCTCTAACACACCTCTCTCTTGTGTtctgtgttctctctctctctctctgtgtttttaTCTCTCTTTCATGTCCCTGTGGGGGGATGCCGGATGGGCGGGGCCTCCTCCTCCTGCTCGGCCTGTGATTGGACGGCTGC
>TCONS_00021654
CAGCCACCCCAAACCTGAAGGACTGGCTTCTGCAAAGACCCTGTGTGAAAACCTCCTGCAGACCgTCCATGCAGAGTATTCCCGTTACCTGAATCAGATGAGCAGCATGATGCCGACTCagggattcATTCATCCTCCTGTTGTTAACGGACTCCCGCCGCAGCCCCCGTATTACTCTCCTGCAGGTTTCCAGCCGTCCTATCCCGCGCCCGTCCCGCCGCCGCCGCCACCCATCGCTCCTCAGTATCCTGTGGCTCCTGTGGCCCCGGCCCCTGTTCCCCCTCCAAACGCACAGTATCCCATCACACCGGTGCCTGCACACGTCCCCACACAGACTCTACTTCCTGCTGCGTTCCCGCCCACTGCTCCGGTTCCGCCCAAACTCACGGCTCCGCCCAACCCGCCACAGAAGCGGCGCTTCACTGAGGAGGTGGACGAGATGGACCGTGGCCTTCTGGGATACCAGGTGAGCTGTGGACGCCTGCAGATCAGCACTGACCAATCCTGTTCCACAGACTCCTGCAGGTCACAGGATGAACCGCCGGCACGACTGACCCCTGACCTCACCACCGCTCCACACCTCTGCGGTGTTTATTTAAGCCCTAGTGAGCcgcctacatagacagcatcatcTTAGTACATCAGTTTATGTGGTTCTATATATATTCCACTTCAAGATGttgaaataaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt

Function

symbol description
khdc4 Predicted to enable RNA binding activity. Predicted to be involved in mRNA splice site selection. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human KHDC4 (KH domain containing 4, pre-mRNA splicing factor).

GO:

id name namespace
GO:0006376 mRNA splice site selection biological_process
GO:0006397 mRNA processing biological_process
GO:0008380 RNA splicing biological_process
GO:0005634 nucleus cellular_component
GO:0005681 spliceosomal complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003723 RNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-405 Predicted to enable RNA binding activity. Predicted to be involved in mRNA splice site selection. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human KHDC4 (KH domain containing 4, pre-mRNA splicing factor).

Ensembl:

ensembl_id ENSDARG00000035023

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00021651 False 2044 mRNA 0.60 14 54785264 54800202
TCONS_00021652 False 2040 mRNA 0.60 14 54785265 54800202
TCONS_00021653 False 861 processed_transcript 0.54 2 54785737 54786983
TCONS_00021654 True 722 lncRNA 0.57 4 54787373 54794574

Neighbor

gene id symbol gene type direction distance location
XLOC_011121 NA coding downstream 18071 54761897 ~ 54767193 (-)
XLOC_011120 spag1b coding downstream 144949 54633238 ~ 54640315 (-)
XLOC_011119 NA coding downstream 187843 54594910 ~ 54597421 (-)
XLOC_011118 NA coding downstream 253174 54526409 ~ 54532090 (-)
XLOC_011117 clk2b coding downstream 287155 54474621 ~ 54498109 (-)
XLOC_011123 zbtb7b coding upstream 4613 54804815 ~ 54810464 (-)
XLOC_011124 kdf1a coding upstream 90633 54890835 ~ 54919260 (-)
XLOC_011125 tpbgl coding upstream 125235 54925437 ~ 54928813 (-)
XLOC_011126 tmem222a coding upstream 130545 54930747 ~ 54942534 (-)
XLOC_011127 wdtc1 coding upstream 147566 54947768 ~ 54978981 (-)
XLOC_010626 CR392024.2 misc downstream 33890089 20895112 ~ 20895175 (-)
XLOC_011114 NA non-coding downstream 346108 54436976 ~ 54439156 (-)
XLOC_011111 NA non-coding downstream 488820 54291662 ~ 54296444 (-)
XLOC_011128 NA non-coding upstream 198784 54998986 ~ 54999993 (-)
XLOC_011131 NA non-coding upstream 391970 55192172 ~ 55204179 (-)

Expression


Co-expression Network