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

SmilChr08G000132

染色体: Chr08 坐标: 827077-829219 链方向: + 类型: protein_coding

基本信息

统一新 Gene IDSmilChr08G000132
名称SmilChr08G000132
描述putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial
染色体 / SeqIDChr08 / NC_080394.1
坐标与链方向827077 - 829219 / +

ID 对照

NCBI Gene IDLOC130999756
GeneID130999756
locus_tag-
NCBI NameLOC130999756
原始查询LOC130999756

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putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial
产物putative pentatricopeptide repeat-containing protein At1g12700%2C mitochondrial
ArabidopsisAT1G12300 (AT1G12300)
Tetratricopeptide repeat (TPR)-like superfamily protein [Source:NCBI gene (formerly Entrezgene);Acc:837784]
identity=36.8; qcov=0.98; evalue=2.66e-130; confidence=medium
RiceOs10g0495200 (Rf4)
-
identity=31.2; qcov=0.87; evalue=2.03e-90; confidence=low
GOGO:0005515 (protein binding)
KEGG-
PfamPF01535 (PPR); PF12854 (PPR_1); PF13041 (PPR_2); PF13812 (PPR_3); PF23276 (TPR_24)
InterPro-
eggNOG-
NRGeneID:130999756

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 0.80000 XP_057781360.1
2 Chloroplast 叶绿体 0.20000 XP_057781360.1
3 Nucleus 细胞核 0.00000 XP_057781360.1
4 Chromosome 染色体 0.00000 XP_057781360.1
5 Centromere 着丝粒 0.00000 XP_057781360.1

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
Chr8:827226 C T EMS_canonical_SNV CDS_variant 2 B118,B136
Chr8:827252 G A EMS_canonical_SNV CDS_variant 3 C16,C33,C63
Chr8:827310 TC T 1bp_deletion frameshift_variant 1 A23
Chr8:827310 TC T 1bp_deletion CDS_variant 1 A23
Chr8:827322 C T EMS_canonical_SNV CDS_variant 4 B15,B82,B94,C61
Chr8:827338 G A EMS_canonical_SNV CDS_variant 4 B23,C32,C53,C61
Chr8:827353 C T EMS_canonical_SNV CDS_variant 5 A16,B1,B58,C46,C75
Chr8:827355 G A EMS_canonical_SNV CDS_variant 1 B136
Chr8:827393 C CA 1bp_insertion frameshift_variant 1 C11
Chr8:827393 C CA 1bp_insertion CDS_variant 1 C11
Chr8:827422 TTC T 2bp_deletion frameshift_variant 2 B136,C53
Chr8:827422 TTC T 2bp_deletion CDS_variant 2 B136,C53

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_057781360.1
601 aa
N
1
300
601
PPR_3
PPR_2
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_2
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR
PPR_2
PPR_3
TPR_24
PPR_1
PPR_2
PPR
PPR_3
PPR_1
PPR_2
PPR
PPR_1
PPR_2
PPR
PPR_3
PPR_2
PPR
PPR_3
PPR_1
PPR
PPR_2
PPR_3
PPR_1
PPR_2
PPR
TPR_24
PPR_3
PPR_1
PPR_2
PPR
PPR
C
PF13812 PPR_3 55-89 aa PF13041 PPR_2 75-123 aa PF01535 PPR 79-108 aa PF13812 PPR_3 99-155 aa PF12854 PPR_1 142-171 aa PF13041 PPR_2 145-195 aa PF01535 PPR 149-177 aa PF13041 PPR_2 181-230 aa PF01535 PPR 188-212 aa PF13812 PPR_3 205-261 aa PF12854 PPR_1 214-244 aa PF13041 PPR_2 216-265 aa PF01535 PPR 220-249 aa PF12854 PPR_1 247-279 aa PF01535 PPR 254-283 aa PF13041 PPR_2 258-300 aa PF13812 PPR_3 275-333 aa PF23276 TPR_24 279-329 aa PF12854 PPR_1 283-315 aa PF13041 PPR_2 287-334 aa PF01535 PPR 289-319 aa PF13812 PPR_3 311-368 aa PF12854 PPR_1 317-350 aa PF13041 PPR_2 321-370 aa PF01535 PPR 324-354 aa PF12854 PPR_1 352-377 aa PF13041 PPR_2 356-391 aa PF01535 PPR 359-388 aa PF13812 PPR_3 387-435 aa PF13041 PPR_2 392-440 aa PF01535 PPR 394-423 aa PF13812 PPR_3 414-471 aa PF12854 PPR_1 423-452 aa PF01535 PPR 429-459 aa PF13041 PPR_2 433-475 aa PF13812 PPR_3 451-506 aa PF12854 PPR_1 457-488 aa PF13041 PPR_2 462-510 aa PF01535 PPR 464-494 aa PF23276 TPR_24 469-577 aa PF13812 PPR_3 485-539 aa PF12854 PPR_1 492-525 aa PF13041 PPR_2 496-543 aa PF01535 PPR 500-529 aa PF01535 PPR 534-564 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_057781360.1 Pfam PF13812 PPR_3 Repeat 55 89 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 75 123 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 79 108 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 99 155 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 142 171 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 145 195 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 149 177 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 181 230 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 188 212 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 205 261 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 214 244 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 216 265 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 220 249 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 247 279 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF01535 PPR Repeat 254 283 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 258 300 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 275 333 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF23276 TPR_24 Repeat 279 329 2.2e-35 122.2 Pentatricopeptide repeat-containing protein
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 283 315 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 287 334 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 289 319 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 311 368 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 317 350 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 321 370 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 324 354 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 352 377 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 356 391 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 359 388 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 387 435 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 392 440 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 394 423 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 414 471 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 423 452 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF01535 PPR Repeat 429 459 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 433 475 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 451 506 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 457 488 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 462 510 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 464 494 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF23276 TPR_24 Repeat 469 577 2.2e-35 122.2 Pentatricopeptide repeat-containing protein
XP_057781360.1 Pfam PF13812 PPR_3 Repeat 485 539 5.6e-67 222.4 Pentatricopeptide repeat domain
XP_057781360.1 Pfam PF12854 PPR_1 Repeat 492 525 7.8e-118 384.6 PPR repeat
XP_057781360.1 Pfam PF13041 PPR_2 Repeat 496 543 2.4e-145 473.3 PPR repeat family
XP_057781360.1 Pfam PF01535 PPR Repeat 500 529 1.8e-92 298.0 PPR repeat
XP_057781360.1 Pfam PF01535 PPR Repeat 534 564 1.8e-92 298.0 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_057925377.1
ATAATCGCAAACTCCATCCGTTGCAATTTCAACCCTTTTTTCAGATTCAATCACAACTAATCTCGCAAGCGTCGCCCAACACTCTCCCTTTCTTCACATTAAATCTCACCGCCGATTAAGGATGACGAGCAGAAGAGCTGCTGTTTCTGCAATCGATCTCATTCATAATGGAAGAGGATTTCTCAATCAATGGTCGCATAAATCGGGTATTATCTCTCCTCCATTCTCTCTCTTCTCTTCCAAGGCTTTTCAACCTAAGC...

CDS

1 records

下载 CDS FASTA
LOC130999756
ATGACGAGCAGAAGAGCTGCTGTTTCTGCAATCGATCTCATTCATAATGGAAGAGGATTTCTCAATCAATGGTCGCATAAATCGGGTATTATCTCTCCTCCATTCTCTCTCTTCTCTTCCAAGGCTTTTCAACCTAAGCAGCCCAGAATCGATTTCAGCTGTGTTAAAGAATTAAATGATGCTATTGAATTGTTTCAAAAAATGAAGAGTATGCAGCGGGAGCCTTCTGTTCTCGTGTATAATAAATTTATGAGTGTTTG...

Protein

1 records

下载 Protein FASTA
XP_057781360.1
MTSRRAAVSAIDLIHNGRGFLNQWSHKSGIISPPFSLFSSKAFQPKQPRIDFSCVKELNDAIELFQKMKSMQREPSVLVYNKFMSVCVKIEQYSFALDVFDEMLRMGVPVNVYTMNIAVNCCCLLKDIKSGFAIMGLFFKSGCEPNVATFNTLIKGLFLNHKVAEAGKLFNMLLRFRICEPNDVMIVTMVDGLCKSGNVLPARDLVRRLERSRLRPNVKAYTALLDGLCKFGMVDDALQLLSAMIEKGITPNVVTYSSMI...

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