Rorug05G0219800

XH domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000340
Physical Location & Seq
Reverse (-)
22662789 .. 22666797
4009 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0219800.1

Sequence Viewer

Length: 726 bp
ATGAAGGATGGCAAAGTTCAGGCATATGCATTAAATGGAAGAGGATTGGTTGGGGGAAGTTTCCAACTTGATTACCCTAGCGTTGGGGCAACAGAGACCCTTCTGATGGCTGCATGTATGGCTGATGGAACAACTATACTGTCCAGTGTTGCCAGAGAGCAGGAAGCAACAAAGCTTGTCATCAAGGGAAAATCTCATTTTCATGGTTGTAAATGTACTATTGCACCTGATCGTATTGAAGCAGGCACGTTTTTGCTTGCTGCAGCTATTGCTCGCTCATTCATTTCAATTTCACCTGTCATTCCTTCCCAAGTTTCCTGTCTGATGCAAAAACTCTTGGCCGCTGGTTGCAAAATAAGGCGATGCTCTCATGATACCTTGGAATTTCAGCAGTGTCTCAATGTGGTGAGAATTTGCGAGGTTTTGAGGTTAAGACAGGGCCATTCCCCGGTAAACGAACTGCGGAAGCTTGGAGCAAAAATTCAAGTCTGTGCAAGCTCTGCTCTGGTTTTCGGGAAAGATAATAGAAGTGGTTTGTCTGGTTCCTGCCTTGCTGCAACTGACCTCAGAGGTGGGATATCATTGGTATTAGCTGCATTGGCTGCAGAAGGTGCTACTGAGATCAGCGGTGTTGCTCATATTGACAGTGGTTATGAGAATGTAGATACAAAAATTCATATGCTGGGAGCCGATATCAAAAGATTAACGGCCCCTGCTTCTTCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

241

Amino Acids

25.31

Weight (kDa)

8.83

Isoelectric Point (pI)

42.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
EPSP_synthase PF00275 51 - 131 1e-09 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
EPSP_synthase PF00275 151 - 221 3.8e-09 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000340)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g01090 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g24990 FvH4_3g36251 FvH4_3g36251 FvH4_3g36252 FvH4_3g36252 FvH4_3g36252 FvH4_3g36252 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_3g36253 FvH4_7g32330
prunus_persica Prupe.6G075600_v2.0.a1 Prupe.6G075700_v2.0.a1
pyrus_communis pycom01g15630
rosa_chinensis RchiOBHm_Chr2g0085841 RchiOBHm_Chr5g0044861 RchiOBHm_Chr5g0044871 RchiOBHm_Chr5g0044881 RchiOBHm_Chr5g0044991 RchiOBHm_Chr5g0045031 RchiOBHm_Chr5g0045041 RchiOBHm_Chr5g0057601 RchiOBHm_Chr5g0062541 RchiOBHm_Chr5g0065071
rosa_laevigata RLG00000002367 RLG00000015724 RLG00000019361 RLG00000034303 RLG00000034306 RLG00000034309 RLG00000034314 RLG00000034321 RLG00000035772 RLG00000035776
rosa_multiflora Rmu_co8361081.1_g000001 Rmu_co8459613.1_g000001 Rmu_sc0001648.1_g000038 Rmu_sc0001648.1_g000049 Rmu_sc0001748.1_g000010 Rmu_sc0002915.1_g000019 Rmu_sc0003352.1_g000043 Rmu_sc0004567.1_g000020 Rmu_sc0004720.1_g000006 Rmu_sc0004730.1_g000006 Rmu_sc0007421.1_g000010 Rmu_sc0008894.1_g000003 Rmu_sc0009359.1_g000002 Rmu_sc0015213.1_g000016
rosa_roxburghii Rroxscaffold_1G00015930 Rroxscaffold_1G00016050 Rroxscaffold_1G00016250 Rroxscaffold_1G00036100 Rroxscaffold_1G00036110 Rroxscaffold_1G00036180 Rroxscaffold_2G00154970 Rroxscaffold_7G00201680
rosa_rugosa Rorug01G0463800 Rorug01G0463900 Rorug01G0464000.1 Rorug01G0464100 Rorug01G0464100 Rorug01G0464200 Rorug01G0464200 Rorug02G0276400 Rorug05G0219500 Rorug05G0219600 Rorug05G0219600 Rorug05G0219800 Rorug05G0220200 Rorug05G0369900 Rorug05G0370000
rosa_samantha Rh1AG259700 Rh2BG013700 Rh2BG456700 Rh2CG014100 Rh2DG015400 Rh2DG466500 Rh4BG040500 Rh5AG273800 Rh5AG301300 Rh5AG301900 Rh5AG426100 Rh5AG428500 Rh5BG308600 Rh5BG309600 Rh5BG443600 Rh5CG335400 Rh5CG335700 Rh5CG335900 Rh5CG336200 Rh5CG411400 Rh5CG411500 Rh5CG464000 Rh5CG465900 Rh6DG082100
rosa_wichuraiana Rw2G001140 Rw5G027930 Rw5G040030 Rw5G040210 Rw5G040230 Rw6G016420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 342, 463, 627
AcoI YGGCCR 1 cut(s) 339
AcsI RAATTY 4 cut(s) 383, 411, 480, 672
AfaI GTAC 1 cut(s) 217
AfiI CCNNNNNNNGG 3 cut(s) 83, 106, 448
AgsI TTSAA 3 cut(s) 239, 288, 485
AluBI AGCT 5 cut(s) 175, 266, 469, 498, 593
AluI AGCT 5 cut(s) 175, 266, 469, 498, 593
Alw26I GTCTC 2 cut(s) 89, 401
AoxI GGCC 3 cut(s) 339, 439, 708
ApeKI GCWGC 6 cut(s) 110, 260, 263, 554, 593, 602
ApoI RAATTY 4 cut(s) 383, 411, 480, 672
AspS9I GGNCC 2 cut(s) 439, 709
AsuC2I CCSGG 1 cut(s) 449
AsuHPI GGTGA 2 cut(s) 285, 418
BbvI GCAGC 6 cut(s) 97, 247, 275, 541, 580, 589
BccI CCATC 3 cut(s) 2, 100, 119
BceAI ACGGC 1 cut(s) 723
BcnI CCSGG 1 cut(s) 449
BcoDI GTCTC 2 cut(s) 89, 401
BfaI CTAG 2 cut(s) 78, 724
BfmI CTRYAG 2 cut(s) 261, 603
BisI GCNGC 7 cut(s) 111, 261, 264, 342, 555, 594, 603
BlsI GCNGC 7 cut(s) 112, 262, 265, 343, 556, 595, 604
Bme1390I CCNGG 1 cut(s) 449
BmgT120I GGNCC 2 cut(s) 439, 709
BmiI GGNNCC 3 cut(s) 544, 688, 711
BmrFI CCNGG 1 cut(s) 449
BmsI GCATC 2 cut(s) 315, 353
BpuMI CCSGG 1 cut(s) 449
BsaI GGTCTC 1 cut(s) 89
BsaJI CCNNGG 2 cut(s) 378, 447
Bsc4I CCNNNNNNNGG 3 cut(s) 83, 106, 448
Bse1I ACTGG 1 cut(s) 144
BseDI CCNNGG 2 cut(s) 378, 447
BseGI GGATG 1 cut(s) 13
BseLI CCNNNNNNNGG 3 cut(s) 83, 106, 448
BseMII CTCAG 2 cut(s) 580, 609
BseNI ACTGG 1 cut(s) 144
BseXI GCAGC 6 cut(s) 97, 247, 275, 541, 580, 589
BseYI CCCAGC 1 cut(s) 682
BshFI GGCC 3 cut(s) 341, 441, 710
BsiSI CCGG 1 cut(s) 449
BslI CCNNNNNNNGG 3 cut(s) 83, 106, 448
BsmAI GTCTC 2 cut(s) 89, 401
BsnI GGCC 3 cut(s) 341, 441, 710
Bso31I GGTCTC 1 cut(s) 89
Bsp143I GATC 2 cut(s) 229, 621
BspACI CCGC 3 cut(s) 342, 463, 627
BspANI GGCC 3 cut(s) 341, 441, 710
BspCNI CTCAG 2 cut(s) 579, 610
BspHI TCATGA 1 cut(s) 370
BspLI GGNNCC 3 cut(s) 544, 688, 711
BspMAI CTGCAG 2 cut(s) 265, 607
BspTNI GGTCTC 1 cut(s) 89
BsrI ACTGG 1 cut(s) 144
BssECI CCNNGG 2 cut(s) 378, 447
BssMI GATC 2 cut(s) 229, 621
BssT1I CCWWGG 1 cut(s) 378
Bst4CI ACNGT 2 cut(s) 141, 647
Bst6I CTCTTC 1 cut(s) 34
BstAPI GCANNNNNTGC 4 cut(s) 269, 500, 602, 611
BstC8I GCNNGC 4 cut(s) 244, 258, 274, 496
BstDEI CTNAG 2 cut(s) 566, 618
BstF5I GGATG 1 cut(s) 13
BstKTI GATC 2 cut(s) 232, 624
BstMAI GTCTC 2 cut(s) 89, 401
BstMBI GATC 2 cut(s) 229, 621
BstMWI GCNNNNNNNGC 6 cut(s) 119, 269, 500, 599, 602, 611
BstNSI RCATGY 1 cut(s) 117
BstSCI CCNGG 1 cut(s) 447
BstSFI CTRYAG 2 cut(s) 261, 603
BstV1I GCAGC 6 cut(s) 97, 247, 275, 541, 580, 589
BsuRI GGCC 3 cut(s) 341, 441, 710
BtgZI GCGATG 1 cut(s) 376
BtsCI GGATG 1 cut(s) 13
BtsI GCAGTG 1 cut(s) 398
BtsIMutI CAGTG 3 cut(s) 151, 398, 652
Cac8I GCNNGC 4 cut(s) 244, 258, 274, 496
CciI TCATGA 1 cut(s) 370
Cfr13I GGNCC 2 cut(s) 439, 709
Csp6I GTAC 1 cut(s) 216
CviAII CATG 3 cut(s) 114, 203, 371
CviQI GTAC 1 cut(s) 216
DdeI CTNAG 2 cut(s) 566, 618
DpnI GATC 2 cut(s) 231, 623
DpnII GATC 2 cut(s) 229, 621
EaeI YGGCCR 1 cut(s) 339
Eam1104I CTCTTC 1 cut(s) 34
EarI CTCTTC 1 cut(s) 34
Eco130I CCWWGG 1 cut(s) 378
Eco31I GGTCTC 1 cut(s) 89
Eco32I GATATC 2 cut(s) 579, 694
EcoRV GATATC 2 cut(s) 579, 694
EcoT14I CCWWGG 1 cut(s) 378
EcoT22I ATGCAT 1 cut(s) 31
ErhI CCWWGG 1 cut(s) 378
FaeI CATG 3 cut(s) 117, 206, 374
FatI CATG 3 cut(s) 113, 202, 370
FauNDI CATATG 2 cut(s) 25, 678
Fnu4HI GCNGC 7 cut(s) 111, 261, 264, 342, 555, 594, 603
FokI GGATG 1 cut(s) 20
Fsp4HI GCNGC 7 cut(s) 111, 261, 264, 342, 555, 594, 603
FspBI CTAG 2 cut(s) 78, 724
GluI GCNGC 7 cut(s) 111, 261, 264, 342, 555, 594, 603
GsaI CCCAGC 1 cut(s) 686
HaeIII GGCC 3 cut(s) 341, 441, 710
HapII CCGG 1 cut(s) 449
Hin1II CATG 3 cut(s) 117, 206, 374
HindIII AAGCTT 2 cut(s) 173, 467
HpaII CCGG 1 cut(s) 449
HphI GGTGA 2 cut(s) 285, 418
Hpy166II GTNNAC 1 cut(s) 454
Hpy188I TCNGA 3 cut(s) 105, 324, 569
Hpy188III TCNNGA 2 cut(s) 371, 514
Hpy8I GTNNAC 1 cut(s) 454
HpyAV CCTTC 3 cut(s) 110, 315, 602
HpyCH4III ACNGT 2 cut(s) 141, 647
HpyCH4IV ACGT 1 cut(s) 248
HpyF10VI GCNNNNNNNGC 6 cut(s) 119, 269, 500, 599, 602, 611
HpyF3I CTNAG 2 cut(s) 566, 618
HpySE526I ACGT 1 cut(s) 248
Hsp92II CATG 3 cut(s) 117, 206, 374
Kzo9I GATC 2 cut(s) 229, 621
LmnI GCTCC 2 cut(s) 473, 686
Lsp1109I GCAGC 6 cut(s) 97, 247, 275, 541, 580, 589
LweI GCATC 2 cut(s) 315, 353
MaeI CTAG 2 cut(s) 78, 724
MaeII ACGT 1 cut(s) 248
MalI GATC 2 cut(s) 231, 623
MboI GATC 2 cut(s) 229, 621
MboII GAAGA 2 cut(s) 51, 711
MluCI AATT 5 cut(s) 288, 383, 411, 480, 672
MmeI TCCRAC 1 cut(s) 88
MnlI CCTC 5 cut(s) 35, 412, 420, 563, 575
Mph1103I ATGCAT 1 cut(s) 31
MseI TTAA 3 cut(s) 32, 431, 704
MslI CAYNNNNRTG 1 cut(s) 201
MspA1I CMGCKG 2 cut(s) 344, 627
MspI CCGG 1 cut(s) 449
MspR9I CCNGG 1 cut(s) 449
MwoI GCNNNNNNNGC 6 cut(s) 119, 269, 500, 599, 602, 611
NciI CCSGG 1 cut(s) 449
NdeI CATATG 2 cut(s) 25, 678
NdeII GATC 2 cut(s) 229, 621
NlaIII CATG 3 cut(s) 117, 206, 374
NlaIV GGNNCC 3 cut(s) 544, 688, 711
NsiI ATGCAT 1 cut(s) 31
NspI RCATGY 1 cut(s) 117
PagI TCATGA 1 cut(s) 370
PkrI GCNGC 7 cut(s) 112, 262, 265, 343, 556, 595, 604
PspFI CCCAGC 1 cut(s) 682
PspN4I GGNNCC 3 cut(s) 544, 688, 711
PspPI GGNCC 2 cut(s) 439, 709
PstI CTGCAG 2 cut(s) 265, 607
RsaI GTAC 1 cut(s) 217
RsaNI GTAC 1 cut(s) 216
RseI CAYNNNNRTG 1 cut(s) 201
SaqAI TTAA 3 cut(s) 32, 431, 704
SatI GCNGC 7 cut(s) 111, 261, 264, 342, 555, 594, 603
Sau3AI GATC 2 cut(s) 229, 621
Sau96I GGNCC 2 cut(s) 439, 709
ScrFI CCNGG 1 cut(s) 449
SfaNI GCATC 2 cut(s) 315, 353
SfcI CTRYAG 2 cut(s) 261, 603
SmiMI CAYNNNNRTG 1 cut(s) 201
Sse9I AATT 5 cut(s) 288, 383, 411, 480, 672
SsiI CCGC 3 cut(s) 342, 463, 627
SspMI CTAG 2 cut(s) 78, 724
StyD4I CCNGG 1 cut(s) 447
StyI CCWWGG 1 cut(s) 378
TaaI ACNGT 2 cut(s) 141, 647
TaiI ACGT 1 cut(s) 251
TasI AATT 5 cut(s) 288, 383, 411, 480, 672
TatI WGTACW 1 cut(s) 215
TauI GCSGC 1 cut(s) 344
Tru1I TTAA 3 cut(s) 32, 431, 704
Tru9I TTAA 3 cut(s) 32, 431, 704
TscAI CASTG 3 cut(s) 151, 398, 652
TseI GCWGC 6 cut(s) 110, 260, 263, 554, 593, 602
TspDTI ATGAA 4 cut(s) 17, 191, 271, 665
TspRI CASTG 3 cut(s) 151, 398, 652
XapI RAATTY 4 cut(s) 383, 411, 480, 672
XceI RCATGY 1 cut(s) 117
XspI CTAG 2 cut(s) 78, 724
Zsp2I ATGCAT 1 cut(s) 31
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.