Red Sage Omics 丹参基因组信息平台
首页 基因查询 ID 对照表 功能注释 结构域预测 Pfam 基因组工具 蛋白互作 亚细胞定位 表达量 共表达 同源/共线性 GO/KEGG 注释 TF 结合位点 TF 靶基因 EMS 突变 JBrowse BLAST 下载 关于 帮助
数据资源
ID 对照表 功能注释 功能检索 次生代谢专题 文献证据 结构域预测 Pfam 同源/共线性
分析工具
基因组工具 引物设计 同源重组引物设计 核酸翻译 BLAST 蛋白互作 亚细胞定位 共表达 GO/KEGG 注释 功能检索
调控/突变
TF 结合位点 TF 靶基因 EMS 突变
帮助
关于 帮助 资源与版本
中文 EN

Gene Card 基因详情

支持统一新 ID、NCBI Gene ID、GeneID、locus_tag、Transcript ID、Protein ID，以及已人工核对的文献基因名查询。页面会先解析到丹参统一基因，再整合坐标、序列、注释、亚细胞定位、EMS 突变和下载入口。
示例

当前解析结果

SmilChr04G003072

染色体: Chr04 坐标: 47267863-47271657 链方向: - 类型: protein_coding

基本信息

统一新 Gene IDSmilChr04G003072
名称SmilChr04G003072
描述calcium and calcium/calmodulin-dependent serine/threonine-protein kinase-like
染色体 / SeqIDChr04 / NC_080390.1
坐标与链方向47267863 - 47271657 / -

ID 对照

NCBI Gene IDLOC131023869
GeneID131023869
locus_tag-
NCBI NameLOC131023869
原始查询SmilChr04G003072

查看完整 ID 对照表

功能注释

来源GFF basic annotation; NCBI GO GAF; KEGG smil; Pfam-A/HMMER; Arabidopsis/Rice homolog
描述calcium and calcium/calmodulin-dependent serine/threonine-protein kinase-like
产物calcium and calcium/calmodulin-dependent serine/threonine-protein kinase-like
ArabidopsisAT5G23580 (CDPK9)
calmodulin-like domain protein kinase 9 [Source:NCBI gene (formerly Entrezgene);Acc:832424]
identity=36.2; qcov=0.93; evalue=2.55e-73; confidence=medium
RiceOs05g0489900 (DMI3)
-
identity=64.9; qcov=1.03; evalue=0; confidence=high
GOGO:0004683 (calcium/calmodulin-dependent protein kinase activity); GO:0005509 (calcium ion binding); GO:0005516 (calmodulin binding); GO:0005524 (ATP binding); GO:0005634 (nucleus); GO:0005737 (cytoplasm); GO:0009931 (calcium-dependent protein serine/threonine kinase activity); GO:0018105 (peptidyl-serine phosphorylation); GO:0035556 (intracellular signal transduction); GO:0046777 (protein autophosphorylation)
KEGGsmil04075 (Plant hormone signal transduction - Salvia miltiorrhiza (redroot sage)); smil04626 (Plant-pathogen interaction - Salvia miltiorrhiza (redroot sage))
PfamPF00036 (EF-hand_1); PF00069 (Pkinase); PF06293 (Kdo); PF07714 (PK_Tyr_Ser-Thr); PF13202 (EF-hand_5); PF13405 (EF-hand_6); PF13499 (EF-hand_7); PF13833 (EF-hand_8)
InterPro-
eggNOG-
NRGeneID:131023869

打开注释模块

亚细胞定位 Top 5

Rank定位位置中文ScoreProtein ID
1 Cytosol 细胞质基质 1.00000 XP_057809481.1
2 Cytoplasm 细胞质 0.80000 XP_057809481.1
3 Nucleus 细胞核 0.20000 XP_057809481.1
4 Chromosome 染色体 0.00000 XP_057809481.1
5 Centromere 着丝粒 0.00000 XP_057809481.1

进入亚细胞定位查询

EMS 诱变突变

下表显示该基因在丹参 EMS 材料中的前 12 个候选突变；完整结果可进入 EMS 突变库继续筛选或下载。

位置 REF ALT 类型 影响 携带材料数 材料
Chr4:47267954 C T EMS_canonical_SNV CDS_variant 2 B118,C5
Chr4:47268023 C T EMS_canonical_SNV CDS_variant 4 B54,B78,C1,C37
Chr4:47268029 G A EMS_canonical_SNV CDS_variant 1 C19
Chr4:47269591 G A EMS_canonical_SNV CDS_variant 5 A11,B12,B131,C65,C9
Chr4:47270301 C T EMS_canonical_SNV CDS_variant 1 B65
Chr4:47270967 G A EMS_canonical_SNV CDS_variant 2 B98,D7
Chr4:47270979 G A EMS_canonical_SNV CDS_variant 2 B104,D11
Chr4:47271105 C T EMS_canonical_SNV CDS_variant 2 B118,C5
Chr4:47271156 G A EMS_canonical_SNV CDS_variant 1 B98
Chr4:47271189 C T EMS_canonical_SNV CDS_variant 1 B104
Chr4:47271275 C T EMS_canonical_SNV CDS_variant 1 D11
Chr4:47271294 CTT C 2bp_deletion frameshift_variant 1 C57

进入 EMS 突变库

预测功能结构域

结构域结果来自 Pfam-A HMM 数据库和 HMMER hmmscan；位置为对应蛋白序列上的氨基酸坐标。

XP_057809481.1
496 aa
N
1
248
496
Pkinase
PK_Tyr_Ser-Thr
Kdo
EF-hand_5
EF-hand_7
EF-hand_6
EF-hand_5
EF-hand_8
EF-hand_1
EF-hand_5
C
PF00069 Pkinase 13-279 aa PF07714 PK_Tyr_Ser-Thr 14-275 aa PF06293 Kdo 110-172 aa PF13202 EF-hand_5 380-398 aa PF13499 EF-hand_7 411-479 aa PF13405 EF-hand_6 413-440 aa PF13202 EF-hand_5 414-436 aa PF13833 EF-hand_8 425-481 aa PF00036 EF-hand_1 454-481 aa PF13202 EF-hand_5 455-476 aa
XP_057809483.1
428 aa
N
1
214
428
Pkinase
PK_Tyr_Ser-Thr
Kdo
C
PF00069 Pkinase 13-279 aa PF07714 PK_Tyr_Ser-Thr 14-275 aa PF06293 Kdo 110-172 aa
Protein ID 来源 结构域编号 结构域名称 类型 起始 aa 终止 aa E-value Score 说明
XP_057809481.1 Pfam PF00069 Pkinase Domain 13 279 8.4e-68 229.3 Protein kinase domain
XP_057809481.1 Pfam PF07714 PK_Tyr_Ser-Thr Domain 14 275 2.2e-37 129.5 Protein tyrosine and serine/threonine kinase
XP_057809481.1 Pfam PF06293 Kdo Family 110 172 4e-05 23.9 Lipopolysaccharide kinase (Kdo/WaaP) family
XP_057809481.1 Pfam PF13202 EF-hand_5 Domain 380 398 1.8e-16 59.4 EF hand
XP_057809481.1 Pfam PF13499 EF-hand_7 Domain 411 479 4.3e-17 62.9 EF-hand domain pair
XP_057809481.1 Pfam PF13405 EF-hand_6 Domain 413 440 6.2e-19 66.6 EF-hand domain
XP_057809481.1 Pfam PF13202 EF-hand_5 Domain 414 436 1.8e-16 59.4 EF hand
XP_057809481.1 Pfam PF13833 EF-hand_8 Domain 425 481 7.3e-08 32.8 EF-hand domain pair
XP_057809481.1 Pfam PF00036 EF-hand_1 Domain 454 481 1.9e-19 68.4 EF hand domain
XP_057809481.1 Pfam PF13202 EF-hand_5 Domain 455 476 1.8e-16 59.4 EF hand
XP_057809483.1 Pfam PF00069 Pkinase Domain 13 279 5.8e-68 229.8 Protein kinase domain
XP_057809483.1 Pfam PF07714 PK_Tyr_Ser-Thr Domain 14 275 1.5e-37 130.0 Protein tyrosine and serine/threonine kinase
XP_057809483.1 Pfam PF06293 Kdo Family 110 172 3e-05 24.3 Lipopolysaccharide kinase (Kdo/WaaP) family

cDNA / CDS / Protein 序列

下载基因组 DNA（仅基因区域）

每个公开基因均提供参考注释对应的转录本序列；蛋白编码基因另提供 CDS 和蛋白序列。非编码 RNA 不适用 CDS 或蛋白下载。真实 accession 的版本后缀予以保留。

cDNA

2 records

下载 cDNA FASTA
XM_057953500.1
TTAGTGGGGTGGAGGGAGTACTGGATACCATAGCCATACATAATAGTAACTTTTTAATTTTGATTAATGAGAAAAAAAAAAGTTAAAGATAAATAAACAAAAAATGAAACGTCACAATTTTGGTGACATAGCAGAGGATCGTTGCCATATTATTATTTGTTGTAGCTCAACTGCTACTCTTGTTCCTCAACATCACCCCAGTGTTGACTTGTGAATTGAAGCAAGAGCAAGATCCTTGATGGGACAGGAAACGAGAAAAT...
XM_057953498.1
TTAGTGGGGTGGAGGGAGTACTGGATACCATAGCCATACATAATAGTAACTTTTTAATTTTGATTAATGAGAAAAAAAAAAGTTAAAGATAAATAAACAAAAAATGAAACGTCACAATTTTGGTGACATAGCAGAGGATCGTTGCCATATTATTATTTGTTGTAGCTCAACTGCTACTCTTGTTCCTCAACATCACCCCAGTGTTGACTTGTGAATTGAAGCAAGAGCAAGATCCTTGATGGGACAGGAAACGAGAAAAT...

CDS

2 records

下载 CDS FASTA
LOC131023869
ATGGGACAGGAAACGAGAAAATCGGTGTCCGATGAATACGAGATGAATGAGATTTTGGGGAGGGGAGGATTCTCAGTTGTAAGAAGAGGTATAGAGAAGAGCGCGAAGAAGCAGGTAGCAGTGAAGACGCTGAGGAGACTGGGGGCGATGACCAAACAGTCCCTTATCTCAGATGCATTGCTCACCAACGAGCTGCTGGTGATGAGGAAGATCGTGGAGGACGTGTCGCCGCATCCCAACGTCATCCATCTCTACGACGT...
LOC131023869
ATGGGACAGGAAACGAGAAAATCGGTGTCCGATGAATACGAGATGAATGAGATTTTGGGGAGGGGAGGATTCTCAGTTGTAAGAAGAGGTATAGAGAAGAGCGCGAAGAAGCAGGTAGCAGTGAAGACGCTGAGGAGACTGGGGGCGATGACCAAACAGTCCCTTATCTCAGATGCATTGCTCACCAACGAGCTGCTGGTGATGAGGAAGATCGTGGAGGACGTGTCGCCGCATCCCAACGTCATCCATCTCTACGACGT...

Protein

2 records

下载 Protein FASTA
XP_057809481.1
MGQETRKSVSDEYEMNEILGRGGFSVVRRGIEKSAKKQVAVKTLRRLGAMTKQSLISDALLTNELLVMRKIVEDVSPHPNVIHLYDVCEDSAGIHLILELCSGGELFDRIVAQPRYNEAEAAAVVRQIAAGLAALHRAGIVHRDLKPENCLFLSKDEDSPLKIMDFGLSSLQDFTHPVVGLFGSIDYVSPEALSAAAITPKTDIWSLGVILYILLSGYPPFIAQSNRQKQQMILSGEFSFYEKTWKNISSSVKQLISSLL...
XP_057809483.1
MGQETRKSVSDEYEMNEILGRGGFSVVRRGIEKSAKKQVAVKTLRRLGAMTKQSLISDALLTNELLVMRKIVEDVSPHPNVIHLYDVCEDSAGIHLILELCSGGELFDRIVAQPRYNEAEAAAVVRQIAAGLAALHRAGIVHRDLKPENCLFLSKDEDSPLKIMDFGLSSLQDFTHPVVGLFGSIDYVSPEALSAAAITPKTDIWSLGVILYILLSGYPPFIAQSNRQKQQMILSGEFSFYEKTWKNISSSVKQLISSLL...

上下游序列下载

upstream/downstream 最大各 10000 bp。负链基因会自动反向互补，使最终 FASTA 为转录方向 5′→3′。

下载 upstream 下载 downstream 下载 upstream + gene + downstream

JBrowse

跳转到基因组浏览器