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

SmilChr02G003364

染色体: Chr02 坐标: 54759037-54762037 链方向: - 类型: protein_coding

基本信息

统一新 Gene IDSmilChr02G003364
名称SmilChr02G003364
描述pentatricopeptide repeat-containing protein At1g19720
染色体 / SeqIDChr02 / NC_080388.1
坐标与链方向54759037 - 54762037 / -

ID 对照

NCBI Gene IDLOC131010312
GeneID131010312
locus_tag-
NCBI NameLOC131010312
原始查询LOC131010312

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pentatricopeptide repeat-containing protein At1g19720
产物pentatricopeptide repeat-containing protein At1g19720
ArabidopsisAT1G19720 (AT1G19720)
Pentatricopeptide repeat (PPR-like) superfamily protein [Source:NCBI gene (formerly Entrezgene);Acc:838561]
identity=49.8; qcov=1.05; evalue=0; confidence=high
RiceOs03g0807400
-
identity=45.7; qcov=0.645; evalue=3.67e-155; confidence=high
GOGO:0003723 (RNA binding); GO:0005515 (protein binding); GO:0008270 (zinc ion binding); GO:0009451 (RNA modification)
KEGG-
PfamPF01535 (PPR); PF12854 (PPR_1); PF13041 (PPR_2); PF13812 (PPR_3); PF14432 (DYW_deaminase); PF23276 (TPR_24)
InterPro-
eggNOG-
NRGeneID:131010312

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_057793753.1
2 Chloroplast 叶绿体 0.20000 XP_057793753.1
3 Nucleus 细胞核 0.00000 XP_057793753.1
4 Chromosome 染色体 0.00000 XP_057793753.1
5 Centromere 着丝粒 0.00000 XP_057793753.1

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
Chr2:54759373 C T EMS_canonical_SNV CDS_variant 1 B97
Chr2:54759509 C T EMS_canonical_SNV CDS_variant 2 B130,B54
Chr2:54759580 G A EMS_canonical_SNV CDS_variant 1 D11
Chr2:54759620 C T EMS_canonical_SNV CDS_variant 1 B98
Chr2:54759638 G A EMS_canonical_SNV CDS_variant 4 A21,B100,C29,C6
Chr2:54759644 C T EMS_canonical_SNV CDS_variant 1 B94
Chr2:54759714 C T EMS_canonical_SNV CDS_variant 1 B1
Chr2:54759800 C T EMS_canonical_SNV CDS_variant 3 A24,B108,B5
Chr2:54759836 C T EMS_canonical_SNV CDS_variant 1 B98
Chr2:54759929 G A EMS_canonical_SNV CDS_variant 1 C2
Chr2:54760080 G A EMS_canonical_SNV CDS_variant 1 C83
Chr2:54760115 G A EMS_canonical_SNV CDS_variant 2 B93,C2

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_057793753.1
854 aa
N
1
427
854
PPR
PPR
PPR
PPR_1
PPR_2
PPR_3
PPR
TPR_24
PPR_1
PPR_2
PPR
PPR_3
PPR
PPR
PPR_2
PPR_3
PPR
PPR_3
PPR
PPR_3
PPR_2
PPR
PPR_3
PPR_2
PPR
PPR
PPR
DYW_deaminase
C
PF01535 PPR 82-106 aa PF01535 PPR 109-137 aa PF01535 PPR 182-206 aa PF12854 PPR_1 207-235 aa PF13041 PPR_2 208-246 aa PF13812 PPR_3 209-254 aa PF01535 PPR 210-240 aa PF23276 TPR_24 211-304 aa PF12854 PPR_1 238-271 aa PF13041 PPR_2 242-290 aa PF01535 PPR 245-275 aa PF13812 PPR_3 265-316 aa PF01535 PPR 281-310 aa PF01535 PPR 353-379 aa PF13041 PPR_2 378-417 aa PF13812 PPR_3 379-425 aa PF01535 PPR 381-411 aa PF13812 PPR_3 402-445 aa PF01535 PPR 416-445 aa PF13812 PPR_3 445-497 aa PF13041 PPR_2 450-498 aa PF01535 PPR 453-481 aa PF13812 PPR_3 550-598 aa PF13041 PPR_2 551-597 aa PF01535 PPR 553-582 aa PF01535 PPR 589-616 aa PF01535 PPR 628-646 aa PF14432 DYW_deaminase 771-854 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_057793753.1 Pfam PF01535 PPR Repeat 82 106 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF01535 PPR Repeat 109 137 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF01535 PPR Repeat 182 206 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF12854 PPR_1 Repeat 207 235 8.7e-72 237.2 PPR repeat
XP_057793753.1 Pfam PF13041 PPR_2 Repeat 208 246 5.3e-92 302.5 PPR repeat family
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 209 254 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF01535 PPR Repeat 210 240 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF23276 TPR_24 Repeat 211 304 3e-22 79.7 Pentatricopeptide repeat-containing protein
XP_057793753.1 Pfam PF12854 PPR_1 Repeat 238 271 8.7e-72 237.2 PPR repeat
XP_057793753.1 Pfam PF13041 PPR_2 Repeat 242 290 5.3e-92 302.5 PPR repeat family
XP_057793753.1 Pfam PF01535 PPR Repeat 245 275 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 265 316 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF01535 PPR Repeat 281 310 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF01535 PPR Repeat 353 379 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF13041 PPR_2 Repeat 378 417 5.3e-92 302.5 PPR repeat family
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 379 425 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF01535 PPR Repeat 381 411 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 402 445 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF01535 PPR Repeat 416 445 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 445 497 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF13041 PPR_2 Repeat 450 498 5.3e-92 302.5 PPR repeat family
XP_057793753.1 Pfam PF01535 PPR Repeat 453 481 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF13812 PPR_3 Repeat 550 598 4.5e-52 174.7 Pentatricopeptide repeat domain
XP_057793753.1 Pfam PF13041 PPR_2 Repeat 551 597 5.3e-92 302.5 PPR repeat family
XP_057793753.1 Pfam PF01535 PPR Repeat 553 582 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF01535 PPR Repeat 589 616 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF01535 PPR Repeat 628 646 2.3e-92 297.7 PPR repeat
XP_057793753.1 Pfam PF14432 DYW_deaminase Domain 771 854 3.1e-24 85.3 DYW family of nucleic acid deaminases

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_057937770.1
GTTGTGGCTCAAAAATCTTGTTCCAATCAGACAACAAAGTTTGGAGAAAAGTGGCGAAACAGCATTGCCCTATCCCACCCTAACCCTATGGAGAGCTTAATTCTTCCCTGCAAAACCATAACTCCCTCAAAAATAGTAGAAATCCCACCAAAATCCAAAACTCATTCGAGGAATACTTCGCCAAAGCTCATCAACGACGCCTACTTAAAGCGGCTCTGCAAACTTGGCCAGCTGAGCGCGGCTATCTCCGCCTTGGACTC...

CDS

1 records

下载 CDS FASTA
LOC131010312
ATGGAGAGCTTAATTCTTCCCTGCAAAACCATAACTCCCTCAAAAATAGTAGAAATCCCACCAAAATCCAAAACTCATTCGAGGAATACTTCGCCAAAGCTCATCAACGACGCCTACTTAAAGCGGCTCTGCAAACTTGGCCAGCTGAGCGCGGCTATCTCCGCCTTGGACTCCTGCAGCTCCACGCTCCACGCCCGCGCCAAGAAATGGATGCACGAACCCGACCCGTTTCTTGAGACCAAGTTGGTTGGTATGTTTGC...

Protein

1 records

下载 Protein FASTA
XP_057793753.1
MESLILPCKTITPSKIVEIPPKSKTHSRNTSPKLINDAYLKRLCKLGQLSAAISALDSCSSTLHARAKKWMHEPDPFLETKLVGMFAKCGSLDDAFKVFDEMRERNLYAWSAVIGAFSREKKWGDVVALFYWMIEDGDVVPDYYMLPKILQACGNCGDVETGELIHGMVIKRGLNGDLRVNNSILSVYAKCGRLSSAEKFFHGMLASDRVSWNALITGYCQAGNIAEAQRLFEFMQEKGLEPDVVTWNVLISSYSQLGKC...

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