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

SmilChr01G001461

染色体: Chr01 坐标: 28387710-28392665 链方向: + 类型: protein_coding

基本信息

统一新 Gene IDSmilChr01G001461
名称SmilChr01G001461
描述pumilio homology domain family member 4-like
染色体 / SeqIDChr01 / NC_080387.1
坐标与链方向28387710 - 28392665 / +

ID 对照

NCBI Gene IDLOC131018324
GeneID131018324
locus_tag-
NCBI NameLOC131018324
原始查询LOC131018324

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pumilio homology domain family member 4-like
产物pumilio homology domain family member 4-like
ArabidopsisAT1G78160 (PUM7)
pumilio 7 [Source:NCBI gene (formerly Entrezgene);Acc:844152]
identity=53.2; qcov=0.578; evalue=3.71e-146; confidence=medium
RiceOs12g0493900
-
identity=58.6; qcov=0.452; evalue=1.47e-131; confidence=medium
GOGO:0003729 (mRNA binding); GO:0005737 (cytoplasm); GO:0010608 (post-transcriptional regulation of gene expression)
KEGG-
PfamPF00806 (PUF)
InterPro-
eggNOG-
NRGeneID:131018324

打开注释模块

亚细胞定位 Top 5

Rank定位位置中文ScoreProtein ID
1 Nucleus 细胞核 1.00000 XP_057803032.1
2 Cytoplasm 细胞质 1.00000 XP_057803036.1
3 Cytosol 细胞质基质 0.60000 XP_057803032.1
4 Cytoplasmic granule 细胞质颗粒 0.20000 XP_057803032.1
5 Cytoplasmic ribonucleoprotein granule Cytoplasmic ribonucleoprotein granule 0.20000 XP_057803032.1

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
Chr1:28388824 ATG A 2bp_deletion frameshift_variant 1 B32
Chr1:28388824 ATG A 2bp_deletion CDS_variant 1 B32
Chr1:28388884 G A EMS_canonical_SNV CDS_variant 3 B109,B45,C2
Chr1:28388971 G A EMS_canonical_SNV CDS_variant 1 B22
Chr1:28389035 G A EMS_canonical_SNV CDS_variant 2 B24,C85
Chr1:28389106 C T EMS_canonical_SNV CDS_variant 3 B4,B71,C62
Chr1:28389149 G A EMS_canonical_SNV CDS_variant 1 C15
Chr1:28389160 C T EMS_canonical_SNV CDS_variant 1 D1
Chr1:28389508 G A EMS_canonical_SNV CDS_variant 4 B26,B99,C44,C49
Chr1:28389556 G A EMS_canonical_SNV CDS_variant 3 A2,B121,B33
Chr1:28389814 C T EMS_canonical_SNV CDS_variant 2 B24,C85
Chr1:28390020 G A EMS_canonical_SNV CDS_variant 2 A11,C43

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_057803032.1
747 aa
N
1
374
747
PUF
PUF
PUF
PUF
PUF
PUF
PUF
PUF
C
PF00806 PUF 432-466 aa PF00806 PUF 468-498 aa PF00806 PUF 509-536 aa PF00806 PUF 545-574 aa PF00806 PUF 580-613 aa PF00806 PUF 619-635 aa PF00806 PUF 652-686 aa PF00806 PUF 693-723 aa
XP_057803036.1
722 aa
N
1
361
722
PUF
PUF
PUF
PUF
PUF
PUF
PUF
PUF
C
PF00806 PUF 407-441 aa PF00806 PUF 443-473 aa PF00806 PUF 484-511 aa PF00806 PUF 520-549 aa PF00806 PUF 555-588 aa PF00806 PUF 594-610 aa PF00806 PUF 627-661 aa PF00806 PUF 668-698 aa
XP_057803041.1
722 aa
N
1
361
722
PUF
PUF
PUF
PUF
PUF
PUF
PUF
PUF
C
PF00806 PUF 407-441 aa PF00806 PUF 443-473 aa PF00806 PUF 484-511 aa PF00806 PUF 520-549 aa PF00806 PUF 555-588 aa PF00806 PUF 594-610 aa PF00806 PUF 627-661 aa PF00806 PUF 668-698 aa
XP_057803047.1
722 aa
N
1
361
722
PUF
PUF
PUF
PUF
PUF
PUF
PUF
PUF
C
PF00806 PUF 407-441 aa PF00806 PUF 443-473 aa PF00806 PUF 484-511 aa PF00806 PUF 520-549 aa PF00806 PUF 555-588 aa PF00806 PUF 594-610 aa PF00806 PUF 627-661 aa PF00806 PUF 668-698 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_057803032.1 Pfam PF00806 PUF Repeat 432 466 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 468 498 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 509 536 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 545 574 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 580 613 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 619 635 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 652 686 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803032.1 Pfam PF00806 PUF Repeat 693 723 7.3e-67 221.0 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 407 441 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 443 473 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 484 511 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 520 549 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 555 588 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 594 610 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 627 661 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803036.1 Pfam PF00806 PUF Repeat 668 698 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 407 441 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 443 473 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 484 511 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 520 549 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 555 588 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 594 610 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 627 661 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803041.1 Pfam PF00806 PUF Repeat 668 698 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 407 441 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 443 473 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 484 511 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 520 549 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 555 588 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 594 610 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 627 661 3.3e-67 222.1 Pumilio-family RNA binding repeat
XP_057803047.1 Pfam PF00806 PUF Repeat 668 698 3.3e-67 222.1 Pumilio-family RNA binding 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

4 records

下载 cDNA FASTA
XM_057947053.1
TGGCATGAAATGCAAAATGAATGAAAATGTTACAATAAAGATCGAAATTGATTTTTCTCGTGAGGAAAATTGATTCAATCTTCAACCGTGAAAATGGGAGAGAAAAAGGAAATGCAGTTCAAGACCTGTTCAACAGTAAAGAGTAAATAGGAAATGCTTAACAATGCCACCAATCATCAGCAGCATCACAATAATCTCGTTGATCACGGTTATGGTCATGCATCATGTGTGAGTCAGAAAATGAATGGTCATCTAAGAAA...
XM_057947049.1
AGTGAAATTCAAAACTGACTGAACATTTTTTTTTATCTTTTTAAATTATTTCTCCTGGTTTCTTTTTTCCTCGTACAACCGTTTGATGAAAAAGCAGTGTAGTAGCAGTGTCTGCGTGTCCCGCCAGCTCAATTTTATTCTACAATTCCTTAATCAATCAAGAAAAATTCTCATAAAAGAATATACACATACATATGGAAATTGTGTGTGTATATATGTGATGGCATACATAAATGTAGGCAGAGCGAGAAATAGAGAGA...

CDS

4 records

下载 CDS FASTA
LOC131018324
ATGAAGGATGATGACGAGTTAGAAATGTTATTAGGCGAGATCCCTCATGCAACATCATCATTTAATCTTCAGGAAATGCTTAACAATGCCACCAATCATCAGCAGCATCACAATAATCTCGTTGATCACGGTTATGGTCATGCATCATGTGTGAGTCAGAAAATGAATGGTCATCTAAGAAATGATGGTGGTAGTGATGAAGCTTCGAAACGTAAGAGTGCGTTTGCATCCTCTCCCGTCAGCGGTTTCTCCTTGCAATC...
LOC131018324
ATGCTTAACAATGCCACCAATCATCAGCAGCATCACAATAATCTCGTTGATCACGGTTATGGTCATGCATCATGTGTGAGTCAGAAAATGAATGGTCATCTAAGAAATGATGGTGGTAGTGATGAAGCTTCGAAACGTAAGAGTGCGTTTGCATCCTCTCCCGTCAGCGGTTTCTCCTTGCAATCCGGTTCGTCGTCTAGTTTGTTCTCCGGTGATGGGCGATCACATTCGGATATTGGATCACTATCCCCGCCCCAGTT...

Protein

4 records

下载 Protein FASTA
XP_057803032.1
MKDDDELEMLLGEIPHATSSFNLQEMLNNATNHQQHHNNLVDHGYGHASCVSQKMNGHLRNDGGSDEASKRKSAFASSPVSGFSLQSGSSSSLFSGDGRSHSDIGSLSPPQFEDFKISGGGFCLDLTKANEGSLVDCFDLYRNFSSMCVRDEREGASAQPYGVQYCDQSPNRSSRTFDKYGVSDNYRSSFSVSVPRRGNVSFEGEAGSAMVEMPYDQRMASLLGSRYSPSQSDRMFCWSDFGSSAPGPQFHRHNGLANNS...
XP_057803036.1
MLNNATNHQQHHNNLVDHGYGHASCVSQKMNGHLRNDGGSDEASKRKSAFASSPVSGFSLQSGSSSSLFSGDGRSHSDIGSLSPPQFEDFKISGGGFCLDLTKANEGSLVDCFDLYRNFSSMCVRDEREGASAQPYGVQYCDQSPNRSSRTFDKYGVSDNYRSSFSVSVPRRGNVSFEGEAGSAMVEMPYDQRMASLLGSRYSPSQSDRMFCWSDFGSSAPGPQFHRHNGLANNSFPMGYMVPNASPSLDNPLVGDSLFY...

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