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

SmilChr01G000830

染色体: Chr01 坐标: 17862711-17873987 链方向: + 类型: protein_coding

基本信息

统一新 Gene IDSmilChr01G000830
名称SmilChr01G000830
描述PH, RCC1 and FYVE domains-containing protein 1-like
染色体 / SeqIDChr01 / NC_080387.1
坐标与链方向17862711 - 17873987 / +

ID 对照

NCBI Gene IDLOC131006821
GeneID131006821
locus_tag-
NCBI NameLOC131006821
原始查询LOC131006821

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PH, RCC1 and FYVE domains-containing protein 1-like
产物PH%2C RCC1 and FYVE domains-containing protein 1-like
ArabidopsisAT5G19420 (AT5G19420)
Regulator of chromosome condensation (RCC1) family with FYVE zinc finger domain-containing protein [Source:NCBI gene (formerly Entrezgene);Acc:832062]
identity=72; qcov=1.03; evalue=0; confidence=high
RiceOs05g0384800
-
identity=68.4; qcov=1.02; evalue=0; confidence=high
GOGO:0046872 (metal ion binding)
KEGG-
PfamPF00415 (RCC1); PF01363 (FYVE); PF08381 (BRX); PF13540 (RCC1_2); PF13713 (BRX_N); PF16457 (PH_12); PF16627 (BRX_assoc); PF25390 (WD40_RLD)
InterPro-
eggNOG-
NRGeneID:131006821

打开注释模块

亚细胞定位 Top 5

Rank定位位置中文ScoreProtein ID
1 Cell membrane 细胞膜 0.80000 XP_057789959.1
2 Cytosol 细胞质基质 0.40000 XP_057789959.1
3 Nucleus 细胞核 0.00000 XP_057789959.1
4 Chromosome 染色体 0.00000 XP_057789959.1
5 Centromere 着丝粒 0.00000 XP_057789959.1

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
Chr1:17865001 G A EMS_canonical_SNV CDS_variant 1 B135
Chr1:17868547 G A EMS_canonical_SNV CDS_variant 1 D10
Chr1:17868591 G A EMS_canonical_SNV CDS_variant 1 B29
Chr1:17868955 C T EMS_canonical_SNV CDS_variant 4 B36,C20,C47,D11
Chr1:17868978 G A EMS_canonical_SNV CDS_variant 1 B71
Chr1:17869012 G A EMS_canonical_SNV CDS_variant 4 B131,B78,C39,D7
Chr1:17869234 G A EMS_canonical_SNV CDS_variant 1 C16
Chr1:17869429 C T EMS_canonical_SNV CDS_variant 1 B29
Chr1:17869526 G A EMS_canonical_SNV CDS_variant 2 C12,C31
Chr1:17869537 G A EMS_canonical_SNV CDS_variant 1 D9
Chr1:17869810 C T EMS_canonical_SNV CDS_variant 4 B131,B78,C39,D7
Chr1:17870398 C T EMS_canonical_SNV CDS_variant 2 C3,D8

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_057789959.1
1100 aa
N
1
550
1100
PH_12
WD40_RLD
RCC1
RCC1_2
RCC1
RCC1_2
RCC1
RCC1
RCC1_2
RCC1
RCC1
FYVE
BRX_N
BRX_assoc
BRX
C
PF16457 PH_12 18-125 aa PF25390 WD40_RLD 264-645 aa PF00415 RCC1 325-373 aa PF13540 RCC1_2 362-388 aa PF00415 RCC1 376-426 aa PF13540 RCC1_2 413-441 aa PF00415 RCC1 430-478 aa PF00415 RCC1 493-542 aa PF13540 RCC1_2 530-558 aa PF00415 RCC1 545-594 aa PF00415 RCC1 599-646 aa PF01363 FYVE 655-716 aa PF13713 BRX_N 911-939 aa PF16627 BRX_assoc 955-1020 aa PF08381 BRX 1026-1081 aa
XP_057789960.1
1070 aa
N
1
535
1070
WD40_RLD
RCC1
RCC1_2
RCC1
RCC1_2
RCC1
RCC1
RCC1_2
RCC1
RCC1
FYVE
BRX_N
BRX_assoc
BRX
C
PF25390 WD40_RLD 234-615 aa PF00415 RCC1 295-343 aa PF13540 RCC1_2 332-358 aa PF00415 RCC1 346-396 aa PF13540 RCC1_2 383-411 aa PF00415 RCC1 400-448 aa PF00415 RCC1 463-512 aa PF13540 RCC1_2 500-528 aa PF00415 RCC1 515-564 aa PF00415 RCC1 569-616 aa PF01363 FYVE 625-686 aa PF13713 BRX_N 881-909 aa PF16627 BRX_assoc 925-990 aa PF08381 BRX 996-1051 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_057789959.1 Pfam PF16457 PH_12 Domain 18 125 3.4e-09 37.9 Pleckstrin homology domain
XP_057789959.1 Pfam PF25390 WD40_RLD Repeat 264 645 4.3e-80 270.5 RCC1-like domain
XP_057789959.1 Pfam PF00415 RCC1 Repeat 325 373 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF13540 RCC1_2 Repeat 362 388 2.3e-33 113.8 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF00415 RCC1 Repeat 376 426 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF13540 RCC1_2 Repeat 413 441 2.3e-33 113.8 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF00415 RCC1 Repeat 430 478 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF00415 RCC1 Repeat 493 542 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF13540 RCC1_2 Repeat 530 558 2.3e-33 113.8 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF00415 RCC1 Repeat 545 594 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF00415 RCC1 Repeat 599 646 3.3e-85 281.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789959.1 Pfam PF01363 FYVE Domain 655 716 1.6e-15 57.6 FYVE zinc finger
XP_057789959.1 Pfam PF13713 BRX_N Domain 911 939 1.9e-14 53.8 Transcription factor BRX N-terminal domain
XP_057789959.1 Pfam PF16627 BRX_assoc Disordered 955 1020 2.3e-12 47.7 Unstructured region between BRX_N and BRX domain
XP_057789959.1 Pfam PF08381 BRX Domain 1026 1081 2.7e-28 97.8 Transcription factor regulating root and shoot growth via Pin3
XP_057789960.1 Pfam PF25390 WD40_RLD Repeat 234 615 4.1e-80 270.5 RCC1-like domain
XP_057789960.1 Pfam PF00415 RCC1 Repeat 295 343 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF13540 RCC1_2 Repeat 332 358 1.7e-33 114.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF00415 RCC1 Repeat 346 396 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF13540 RCC1_2 Repeat 383 411 1.7e-33 114.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF00415 RCC1 Repeat 400 448 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF00415 RCC1 Repeat 463 512 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF13540 RCC1_2 Repeat 500 528 1.7e-33 114.2 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF00415 RCC1 Repeat 515 564 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF00415 RCC1 Repeat 569 616 2.6e-85 281.5 Regulator of chromosome condensation (RCC1) repeat
XP_057789960.1 Pfam PF01363 FYVE Domain 625 686 1.5e-15 57.7 FYVE zinc finger
XP_057789960.1 Pfam PF13713 BRX_N Domain 881 909 1.8e-14 53.8 Transcription factor BRX N-terminal domain
XP_057789960.1 Pfam PF16627 BRX_assoc Disordered 925 990 2.2e-12 47.7 Unstructured region between BRX_N and BRX domain
XP_057789960.1 Pfam PF08381 BRX Domain 996 1051 2.6e-28 97.9 Transcription factor regulating root and shoot growth via Pin3

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_057933976.1
TTACACGTTCACTCTTAGTAATACGAGTAACGTTAATTAAAATTGTAATGAATTCATGTAAAGAGTAGTCCACCCTCTCTCTCTCTCTCCTGCCATAAACGTCTGCTGCGGAGAACTGTTGATCATCAAATCAAAATCCATTGGATTCCACCAATTCTTCTGTTCTCCCATAAAAATCGACCTCGCAGTCGCAATAGTCGTCAACCAACAGCTGGGGGTTTACCCTAATGCCCCTCCCTGCGCTGCATTTCCTTTACGCT...
XM_057933977.1
ACTCTTAGTAATACGAGTAACGTTAATTAAAATTGTAATGAATTCATGTAAAGAGTAGTCCACCCTCTCTCTCTCTCTCCTGCCATAAACGTCTGCTGCGGAGAACTGTTGATCATCAAATCAAAATCCATTGGATTCCACCAATTCTTCTGTTCTCCCATAAAAATCGACCTCGCAGTCGCAATAGTCGTCAACCAACAGCTGGGGGTTTACCCTAATGCCCCTCCCTGCGCTGCATTTCCTTTACGCTGGCGTCTCTC...

CDS

2 records

下载 CDS FASTA
LOC131006821
ATGAGCAACGCTGAGGTCAGCGGAGCTGGTGGGCCCGTGGAGAGAGACATCGAGCAGGCAATTACTGCTCTAAAGAAAGGCTCACACTTACTCAAGTATGGAAGAAGAGGAAAGCCCAAGTTTTGTCCATTTCGCCTTGCAAATGATGAGTCTGTTCTGATATGGTTCTCGGGTAAAGAAGAGAAACACCTTAAACTTAGTCATGTATCCAGGATTATCTCTGGTCAGCGGACTCCAATTTTCCAAAGGTACCCACGACC...
LOC131006821
ATGAGCAACGCTGAGGTCAGCGGAGCTGGTGGGCCCGTGGAGAGAGACATCGAGCAGGCAATTACTGCTCTAAAGAAAGGCTCACACTTACTCAAGTATGGAAGAAGAGGAAAGCCCAAGTTTTGTCCATTTCGCCTTGCAAATCCAATTTTCCAAAGGTACCCACGACCTGAGAAGGAATATCAGTCTTTGTCTTTGATATATAATAATGACAGATCACTTGATGTGATATGCAAGGATAAGGAAGAAGCAGAAGTGTG...

Protein

2 records

下载 Protein FASTA
XP_057789959.1
MSNAEVSGAGGPVERDIEQAITALKKGSHLLKYGRRGKPKFCPFRLANDESVLIWFSGKEEKHLKLSHVSRIISGQRTPIFQRYPRPEKEYQSLSLIYNNDRSLDVICKDKEEAEVWFSGLKALISRYHQRKWRTELRSDGISSGATSPRIYTTRSSPLNSPFGGGDSLQKDGSQLYLHTPYDSPPKNDVDKAFSDVIYAVPPKGFFPFDSATGSTHSISSGGSDGVHGLMKGTGMDTFRVSLSSAVSSSSQGSGHGEND...
XP_057789960.1
MSNAEVSGAGGPVERDIEQAITALKKGSHLLKYGRRGKPKFCPFRLANPIFQRYPRPEKEYQSLSLIYNNDRSLDVICKDKEEAEVWFSGLKALISRYHQRKWRTELRSDGISSGATSPRIYTTRSSPLNSPFGGGDSLQKDGSQLYLHTPYDSPPKNDVDKAFSDVIYAVPPKGFFPFDSATGSTHSISSGGSDGVHGLMKGTGMDTFRVSLSSAVSSSSQGSGHGENDSLGDVYIWGEGTGDGIIGGGPHRVGSSSGV...

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