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

SmilChr08G004807

染色体: Chr08 坐标: 57383232-57391037 链方向: + 类型: protein_coding

基本信息

统一新 Gene IDSmilChr08G004807
名称SmilChr08G004807
描述protein Rf1, mitochondrial-like
染色体 / SeqIDChr08 / NC_080394.1
坐标与链方向57383232 - 57391037 / +

ID 对照

NCBI Gene IDLOC130998812
GeneID130998812
locus_tag-
NCBI NameLOC130998812
原始查询LOC130998812

查看完整 ID 对照表

功能注释

来源GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
描述protein Rf1, mitochondrial-like
产物protein Rf1%2C mitochondrial-like
ArabidopsisAT1G12700 (RPF1)
RNA processing FACTOR [Source:NCBI gene (formerly Entrezgene);Acc:837825]
identity=36.1; qcov=0.452; evalue=8.97e-125; confidence=medium
RiceOs10g0421800
-
identity=24.7; qcov=0.805; evalue=4.3e-97; confidence=weak
GOGO:0005515 (protein binding)
KEGG-
PfamPF01535 (PPR); PF12854 (PPR_1); PF13041 (PPR_2); PF13812 (PPR_3); PF17177 (PPR_long); PF23276 (TPR_24)
InterPro-
eggNOG-
NRGeneID:130998812

打开注释模块

亚细胞定位 Top 5

Rank定位位置中文ScoreProtein ID
1 Mitochondrion 线粒体 0.60000 XP_057780202.1
2 Chloroplast 叶绿体 0.40000 XP_057780202.1
3 Nucleus 细胞核 0.00000 XP_057780202.1
4 Chromosome 染色体 0.00000 XP_057780202.1
5 Centromere 着丝粒 0.00000 XP_057780202.1

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
Chr8:57383340 C T EMS_canonical_SNV CDS_variant 1 B113
Chr8:57383426 GAT G 2bp_deletion frameshift_variant 48 A1,A18,A19,A24,A7,B108,B114,B118,B12,B120,B126,B128,B138,B2,B21,B22,B29,B3,B33,B4,B40,B42,B43,B46,B52,B53,B55,B57,B59,B64,B66,B72,B85,B88,B91,B93,C17,C31,C36,C40,C5,C50,C57,C58,C60,C67,C74,C81
Chr8:57383430 C CTT 2bp_insertion frameshift_variant 48 A1,A18,A19,A24,A7,B108,B114,B118,B12,B120,B126,B128,B138,B2,B21,B22,B29,B3,B33,B4,B40,B42,B43,B46,B52,B53,B55,B57,B59,B64,B66,B72,B85,B88,B91,B93,C17,C31,C36,C40,C5,C50,C57,C58,C60,C67,C74,C81
Chr8:57383511 C T EMS_canonical_SNV CDS_variant 2 C65,C77
Chr8:57383518 G A EMS_canonical_SNV CDS_variant 1 C76
Chr8:57383547 G A EMS_canonical_SNV CDS_variant 3 B112,B131,D3
Chr8:57383556 C T EMS_canonical_SNV CDS_variant 2 A15,B28
Chr8:57383662 G A EMS_canonical_SNV CDS_variant 3 B23,B56,C76
Chr8:57383768 C T EMS_canonical_SNV CDS_variant 3 A14,B139,B67
Chr8:57383931 TC T 1bp_deletion frameshift_variant 6 A22,B41,B54,C15,C4,C57
Chr8:57383935 C CG 1bp_insertion frameshift_variant 6 A22,B41,B54,C15,C4,C57
Chr8:57384058 C T EMS_canonical_SNV CDS_variant 5 A22,B54,C4,C57,C77

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_057780202.1
1258 aa
N
1
629
1258
PPR_1
PPR_2
PPR
PPR_1
PPR
PPR_3
PPR_1
PPR_2
TPR_24
PPR
PPR_1
PPR_2
PPR
PPR_3
PPR_1
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR
PPR_3
PPR_2
PPR
PPR_1
PPR
PPR_2
PPR_3
PPR_1
PPR_2
PPR
TPR_24
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR_2
PPR
PPR_2
PPR
PPR_1
PPR_2
PPR
PPR_1
PPR
PPR_3
PPR_1
PPR_2
TPR_24
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR_2
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR_2
PPR
TPR_24
PPR_1
PPR_3
PPR_2
PPR
PPR_long
PPR_1
PPR_2
PPR
PPR_3
PPR_1
PPR
PPR_2
PPR_1
PPR
PPR_2
TPR_24
PPR_3
PPR_1
PPR
PPR_2
PPR_1
PPR_2
PPR
C
PF12854 PPR_1 149-180 aa PF13041 PPR_2 153-203 aa PF01535 PPR 156-181 aa PF12854 PPR_1 187-204 aa PF01535 PPR 193-219 aa PF13812 PPR_3 221-271 aa PF12854 PPR_1 224-252 aa PF13041 PPR_2 226-275 aa PF23276 TPR_24 228-319 aa PF01535 PPR 229-259 aa PF12854 PPR_1 257-289 aa PF13041 PPR_2 261-306 aa PF01535 PPR 264-292 aa PF13812 PPR_3 285-343 aa PF12854 PPR_1 294-325 aa PF01535 PPR 299-327 aa PF13812 PPR_3 324-376 aa PF12854 PPR_1 329-357 aa PF13041 PPR_2 331-380 aa PF01535 PPR 335-364 aa PF12854 PPR_1 363-391 aa PF01535 PPR 370-391 aa PF13812 PPR_3 399-446 aa PF13041 PPR_2 401-449 aa PF01535 PPR 404-431 aa PF12854 PPR_1 434-462 aa PF01535 PPR 440-468 aa PF13041 PPR_2 440-484 aa PF13812 PPR_3 461-498 aa PF12854 PPR_1 467-498 aa PF13041 PPR_2 473-519 aa PF01535 PPR 474-503 aa PF23276 TPR_24 493-591 aa PF13812 PPR_3 495-549 aa PF12854 PPR_1 502-535 aa PF13041 PPR_2 506-555 aa PF01535 PPR 509-539 aa PF12854 PPR_1 537-569 aa PF13041 PPR_2 541-586 aa PF01535 PPR 544-574 aa PF13041 PPR_2 698-743 aa PF01535 PPR 699-726 aa PF12854 PPR_1 760-792 aa PF13041 PPR_2 764-814 aa PF01535 PPR 767-793 aa PF12854 PPR_1 798-825 aa PF01535 PPR 804-830 aa PF13812 PPR_3 832-882 aa PF12854 PPR_1 835-863 aa PF13041 PPR_2 837-886 aa PF23276 TPR_24 839-929 aa PF01535 PPR 841-870 aa PF13812 PPR_3 867-916 aa PF12854 PPR_1 868-900 aa PF13041 PPR_2 872-921 aa PF01535 PPR 875-903 aa PF12854 PPR_1 905-936 aa PF13041 PPR_2 907-955 aa PF01535 PPR 910-938 aa PF13812 PPR_3 934-989 aa PF12854 PPR_1 940-967 aa PF13041 PPR_2 942-991 aa PF01535 PPR 945-973 aa PF12854 PPR_1 974-997 aa PF13041 PPR_2 977-1025 aa PF01535 PPR 980-1002 aa PF23276 TPR_24 1006-1108 aa PF12854 PPR_1 1010-1041 aa PF13812 PPR_3 1010-1057 aa PF13041 PPR_2 1012-1060 aa PF01535 PPR 1015-1043 aa PF17177 PPR_long 1021-1168 aa PF12854 PPR_1 1044-1074 aa PF13041 PPR_2 1048-1095 aa PF01535 PPR 1051-1079 aa PF13812 PPR_3 1071-1129 aa PF12854 PPR_1 1078-1109 aa PF01535 PPR 1086-1115 aa PF13041 PPR_2 1089-1130 aa PF12854 PPR_1 1113-1144 aa PF01535 PPR 1120-1150 aa PF13041 PPR_2 1124-1165 aa PF23276 TPR_24 1139-1236 aa PF13812 PPR_3 1141-1195 aa PF12854 PPR_1 1148-1181 aa PF01535 PPR 1155-1185 aa PF13041 PPR_2 1159-1201 aa PF12854 PPR_1 1183-1215 aa PF13041 PPR_2 1187-1231 aa PF01535 PPR 1190-1220 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_057780202.1 Pfam PF12854 PPR_1 Repeat 149 180 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 153 203 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 156 181 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 187 204 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 193 219 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 221 271 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 224 252 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 226 275 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF23276 TPR_24 Repeat 228 319 1.6e-67 226.2 Pentatricopeptide repeat-containing protein
XP_057780202.1 Pfam PF01535 PPR Repeat 229 259 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 257 289 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 261 306 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 264 292 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 285 343 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 294 325 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 299 327 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 324 376 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 329 357 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 331 380 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 335 364 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 363 391 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 370 391 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 399 446 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 401 449 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 404 431 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 434 462 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 440 468 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 440 484 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 461 498 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 467 498 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 473 519 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 474 503 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF23276 TPR_24 Repeat 493 591 1.6e-67 226.2 Pentatricopeptide repeat-containing protein
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 495 549 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 502 535 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 506 555 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 509 539 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 537 569 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 541 586 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 544 574 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 698 743 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 699 726 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 760 792 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 764 814 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 767 793 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 798 825 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 804 830 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 832 882 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 835 863 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 837 886 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF23276 TPR_24 Repeat 839 929 1.6e-67 226.2 Pentatricopeptide repeat-containing protein
XP_057780202.1 Pfam PF01535 PPR Repeat 841 870 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 867 916 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 868 900 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 872 921 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 875 903 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 905 936 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 907 955 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 910 938 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 934 989 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 940 967 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 942 991 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 945 973 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 974 997 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 977 1025 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 980 1002 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF23276 TPR_24 Repeat 1006 1108 1.6e-67 226.2 Pentatricopeptide repeat-containing protein
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1010 1041 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 1010 1057 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1012 1060 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 1015 1043 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF17177 PPR_long Repeat 1021 1168 7.3e-57 192.9 Pentacotripeptide-repeat region of PRORP
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1044 1074 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1048 1095 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 1051 1079 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 1071 1129 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1078 1109 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 1086 1115 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1089 1130 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1113 1144 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 1120 1150 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1124 1165 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF23276 TPR_24 Repeat 1139 1236 1.6e-67 226.2 Pentatricopeptide repeat-containing protein
XP_057780202.1 Pfam PF13812 PPR_3 Repeat 1141 1195 1.6e-124 406.8 Pentatricopeptide repeat domain
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1148 1181 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF01535 PPR Repeat 1155 1185 1.3e-181 577.4 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1159 1201 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF12854 PPR_1 Repeat 1183 1215 2.3e-255 824.5 PPR repeat
XP_057780202.1 Pfam PF13041 PPR_2 Repeat 1187 1231 3.2e-293 946.8 PPR repeat family
XP_057780202.1 Pfam PF01535 PPR Repeat 1190 1220 1.3e-181 577.4 PPR repeat

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

1 records

下载 cDNA FASTA
XM_057924219.1
GAAAATAGAAACCCCAAAACTCTGAGTAGAATTTAAGCTAAGAGAGTGAGAAAACCTACTAAAACATTCTATCCCAAAAATGAGGTCGAACCACGCCGCCATGTTTTTCGGTAGAATTTTGTCTAATTCTTCATTTAAATTCTCCACTTTTGCCATCGCTTCCCCACATTATCAATCATTTCTTGTCAAACCCAGATTCAATTTTGATAATCTCACCCACCAAATTAGATACTTCTCCCCCTATCCCAGATTCGATTTTG...

CDS

1 records

下载 CDS FASTA
LOC130998812
ATGAGGTCGAACCACGCCGCCATGTTTTTCGGTAGAATTTTGTCTAATTCTTCATTTAAATTCTCCACTTTTGCCATCGCTTCCCCACATTATCAATCATTTCTTGTCAAACCCAGATTCAATTTTGATAATCTCACCCACCAAATTAGATACTTCTCCCCCTATCCCAGATTCGATTTTGGATCTATACGTGAGCCCAACGATGCCGTCGCTCTATTTCGGGAGATGGTGAGGACGCAGCCGCTCCCTTATGCTTCTGT...

Protein

1 records

下载 Protein FASTA
XP_057780202.1
MRSNHAAMFFGRILSNSSFKFSTFAIASPHYQSFLVKPRFNFDNLTHQIRYFSPYPRFDFGSIREPNDAVALFREMVRTQPLPYASVFSTLLSTVVKMKQYSLALHLIDEMLQRDVPVNHYILTIAIDCYCRQKRPDFGFAILGIFFKRGYEPTVVTFTTLIKGLLLVGRVPEAAKVLKKLLVLQLCEPDERTYNTMINGVCKAVGSLHALELLCLLEKEKGICKPDVYSYTAVIDRLCKEGKVNDALQLFSSLGDKGIS...

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