Rh4BG033800

HR-like lesion-inducing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0011782
Physical Location & Seq
Reverse (-)
6125918 .. 6128640
2723 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG033800.1

Sequence Viewer

Length: 480 bp
ATGGGGTTCTTCTCCTTCTTCGGCCGCGTCCTCTTCGCCTCCATCTTCATCCTCTCCGCTTGGCAAGCGTTCAATGAATTTGGTACTGATGGAGGACCTGCTGCAAAGGAGTTGGCTCCCAAATTTTCCGTTTTAAAAGATCACCTGTCTTCGAAACTGGGCTTTGCATTACCGGATGTAGATCCTATTCATTTAGCTGGAGCTGTGATAGCTCTAAAAGGTCTGGGAGGCATTCTATTTGTACTTAACAGTAATATTGGAGCTCTTCTCCTGATTATTCAATTGGCATTTACCACTCCCCTCATCTATGATTTCTACAACTTCAGTCCAGACACTCCCAAATTTGGTGTACTCCTGAATGATTTCTTGCAGCAAGCAGCACTTGTTGGTGCACTGTTTTTCTTCATCGGGATGAAGAACTCTATTTCTAAGAGGGGCCAAATCACCAAGAAGAAGATCCACAAAACCAAAACTGGTTAG
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
HR_lesion

Protein Analysis

159

Amino Acids

17.26

Weight (kDa)

9.7

Isoelectric Point (pI)

24.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HR_lesion PF05514 1 - 138 2.6e-52 HR-like lesion-inducing
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0011782)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04340 AT5G43460 AT5G43460
fragaria_vesca FvH4_4g03211 FvH4_5g30450
malus_domestica MD13G1210700.v1.1 MD16G1213900.v1.1
prunus_persica Prupe.1G035100_v2.0.a1
pyrus_communis pycom13g18320 pycom16g17970
rosa_chinensis RchiOBHm_Chr4g0391891
rosa_laevigata RLG00000009851
rosa_multiflora Rmu_co8463711.1_g000001 Rmu_sc0000383.1_g000013 Rmu_sc0007693.1_g000011
rosa_rugosa Rorug03G0336700
rosa_samantha Rh4AG039100 Rh4BG033800
rosa_wichuraiana Rw4G003050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 106
AccII CGCG 1 cut(s) 27
AciI CCGC 2 cut(s) 25, 57
AclWI GGATC 2 cut(s) 176, 451
AcoI YGGCCR 1 cut(s) 22
AcsI RAATTY 3 cut(s) 77, 122, 341
AcuI CTGAAG 1 cut(s) 307
AfaI GTAC 3 cut(s) 85, 243, 351
AfiI CCNNNNNNNGG 1 cut(s) 344
AgsI TTSAA 2 cut(s) 73, 281
AluBI AGCT 4 cut(s) 197, 203, 212, 263
AluI AGCT 4 cut(s) 197, 203, 212, 263
Alw21I GWGCWC 2 cut(s) 265, 394
Alw44I GTGCAC 1 cut(s) 390
AlwI GGATC 2 cut(s) 176, 451
AoxI GGCC 2 cut(s) 22, 436
ApaLI GTGCAC 1 cut(s) 390
ApeKI GCWGC 3 cut(s) 101, 370, 377
ApoI RAATTY 3 cut(s) 77, 122, 341
Asp700I GAANNNNTTC 1 cut(s) 362
AspS9I GGNCC 2 cut(s) 95, 436
AsuHPI GGTGA 2 cut(s) 134, 436
AsuII TTCGAA 1 cut(s) 152
AvaII GGWCC 1 cut(s) 95
BaeGI GKGCMC 1 cut(s) 394
BanII GRGCYC 1 cut(s) 265
BbsI GAAGAC 1 cut(s) 141
Bbv12I GWGCWC 2 cut(s) 265, 394
BbvI GCAGC 3 cut(s) 88, 382, 389
BccI CCATC 2 cut(s) 50, 83
BfuAI ACCTGC 1 cut(s) 106
BisI GCNGC 4 cut(s) 25, 102, 371, 378
BlsI GCNGC 4 cut(s) 26, 103, 372, 379
Bme18I GGWCC 1 cut(s) 95
BmgT120I GGNCC 2 cut(s) 95, 436
BmiI GGNNCC 2 cut(s) 117, 437
BmrI ACTGGG 1 cut(s) 167
BmuI ACTGGG 1 cut(s) 167
BpiI GAAGAC 1 cut(s) 141
BplI GAGNNNNNCTC 2 cut(s) 252, 284
BpmI CTGGAG 1 cut(s) 219
Bpu14I TTCGAA 1 cut(s) 152
BsaBI GATNNNNATC 1 cut(s) 180
BsaWI WCCGGW 1 cut(s) 172
Bsc4I CCNNNNNNNGG 1 cut(s) 344
Bse1I ACTGG 2 cut(s) 162, 478
Bse8I GATNNNNATC 1 cut(s) 180
BseGI GGATG 3 cut(s) 48, 181, 417
BseJI GATNNNNATC 1 cut(s) 180
BseLI CCNNNNNNNGG 1 cut(s) 344
BseNI ACTGG 2 cut(s) 162, 478
BseSI GKGCMC 1 cut(s) 394
BseX3I CGGCCG 1 cut(s) 22
BseXI GCAGC 3 cut(s) 88, 382, 389
Bsh1236I CGCG 1 cut(s) 27
Bsh1285I CGRYCG 1 cut(s) 25
BshFI GGCC 2 cut(s) 24, 438
BsiEI CGRYCG 1 cut(s) 25
BsiHKAI GWGCWC 2 cut(s) 265, 394
BsiSI CCGG 1 cut(s) 173
BslI CCNNNNNNNGG 1 cut(s) 344
BsmI GAATGC 1 cut(s) 231
BsnI GGCC 2 cut(s) 24, 438
Bsp119I TTCGAA 1 cut(s) 152
Bsp1286I GDGCHC 2 cut(s) 265, 394
Bsp143I GATC 3 cut(s) 139, 181, 456
BspACI CCGC 2 cut(s) 25, 57
BspANI GGCC 2 cut(s) 24, 438
BspFNI CGCG 1 cut(s) 27
BspLI GGNNCC 2 cut(s) 117, 437
BspMI ACCTGC 1 cut(s) 106
BspPI GGATC 2 cut(s) 176, 451
BspQI GCTCTTC 1 cut(s) 270
BspT104I TTCGAA 1 cut(s) 152
BsrI ACTGG 2 cut(s) 162, 478
BssMI GATC 3 cut(s) 139, 181, 456
Bst4CI ACNGT 2 cut(s) 251, 396
Bst6I CTCTTC 2 cut(s) 38, 270
BstBI TTCGAA 1 cut(s) 152
BstC8I GCNNGC 2 cut(s) 66, 375
BstDEI CTNAG 1 cut(s) 429
BstF5I GGATG 3 cut(s) 48, 181, 417
BstFNI CGCG 1 cut(s) 27
BstKTI GATC 3 cut(s) 142, 184, 459
BstMBI GATC 3 cut(s) 139, 181, 456
BstMCI CGRYCG 1 cut(s) 25
BstMWI GCNNNNNNNGC 2 cut(s) 65, 209
BstSLI GKGCMC 1 cut(s) 394
BstUI CGCG 1 cut(s) 27
BstV1I GCAGC 3 cut(s) 88, 382, 389
BstV2I GAAGAC 1 cut(s) 141
BstX2I RGATCY 2 cut(s) 181, 456
BstYI RGATCY 2 cut(s) 181, 456
BstZI CGGCCG 1 cut(s) 22
BsuRI GGCC 2 cut(s) 24, 438
BtsCI GGATG 3 cut(s) 48, 181, 417
BtsIMutI CAGTG 1 cut(s) 392
BveI ACCTGC 1 cut(s) 106
Cac8I GCNNGC 2 cut(s) 66, 375
Cfr13I GGNCC 2 cut(s) 95, 436
CseI GACGC 1 cut(s) 16
Csp6I GTAC 3 cut(s) 84, 242, 350
CviJI RGCY 8 cut(s) 24, 116, 162, 197, 203, 212, 263, 438
CviKI_1 RGCY 8 cut(s) 24, 116, 162, 197, 203, 212, 263, 438
CviQI GTAC 3 cut(s) 84, 242, 350
DdeI CTNAG 1 cut(s) 429
DpnI GATC 3 cut(s) 141, 183, 458
DpnII GATC 3 cut(s) 139, 181, 456
DraI TTTAAA 1 cut(s) 135
EaeI YGGCCR 1 cut(s) 22
EagI CGGCCG 1 cut(s) 22
Eam1104I CTCTTC 2 cut(s) 38, 270
EarI CTCTTC 2 cut(s) 38, 270
Ecl136II GAGCTC 1 cut(s) 263
EclXI CGGCCG 1 cut(s) 22
Eco24I GRGCYC 1 cut(s) 265
Eco47I GGWCC 1 cut(s) 95
Eco52I CGGCCG 1 cut(s) 22
Eco53kI GAGCTC 1 cut(s) 263
Eco57I CTGAAG 1 cut(s) 307
EcoICRI GAGCTC 1 cut(s) 263
EcoO109I RGGNCCY 1 cut(s) 95
EcoT38I GRGCYC 1 cut(s) 265
FaiI YATR 1 cut(s) 309
FalI AAGNNNNNCTT 2 cut(s) 366, 398
Fnu4HI GCNGC 4 cut(s) 25, 102, 371, 378
FokI GGATG 3 cut(s) 35, 188, 424
FriOI GRGCYC 1 cut(s) 265
Fsp4HI GCNGC 4 cut(s) 25, 102, 371, 378
GluI GCNGC 4 cut(s) 25, 102, 371, 378
GsuI CTGGAG 1 cut(s) 219
HaeIII GGCC 2 cut(s) 24, 438
HapII CCGG 1 cut(s) 173
HgaI GACGC 1 cut(s) 16
HpaII CCGG 1 cut(s) 173
HphI GGTGA 2 cut(s) 134, 436
Hpy166II GTNNAC 2 cut(s) 350, 392
Hpy188III TCNNGA 4 cut(s) 271, 329, 355, 409
Hpy8I GTNNAC 2 cut(s) 350, 392
HpyAV CCTTC 1 cut(s) 25
HpyCH4III ACNGT 2 cut(s) 251, 396
HpyCH4V TGCA 4 cut(s) 104, 167, 370, 392
HpyF10VI GCNNNNNNNGC 2 cut(s) 65, 209
HpyF3I CTNAG 1 cut(s) 429
Kzo9I GATC 3 cut(s) 139, 181, 456
LguI GCTCTTC 1 cut(s) 270
LmnI GCTCC 3 cut(s) 121, 200, 260
Lsp1109I GCAGC 3 cut(s) 88, 382, 389
MalI GATC 3 cut(s) 141, 183, 458
MboI GATC 3 cut(s) 139, 181, 456
MboII GAAGA 9 cut(s) 10, 25, 37, 141, 257, 394, 427, 463, 466
MfeI CAATTG 1 cut(s) 281
MflI RGATCY 2 cut(s) 181, 456
MhlI GDGCHC 2 cut(s) 265, 394
MluCI AATT 4 cut(s) 77, 122, 281, 341
MnlI CCTC 7 cut(s) 41, 49, 62, 86, 221, 311, 426
MroXI GAANNNNTTC 1 cut(s) 362
MseI TTAA 2 cut(s) 134, 246
MslI CAYNNNNRTG 1 cut(s) 410
MspI CCGG 1 cut(s) 173
MunI CAATTG 1 cut(s) 281
Mva1269I GAATGC 1 cut(s) 231
MvnI CGCG 1 cut(s) 27
MwoI GCNNNNNNNGC 2 cut(s) 65, 209
NdeII GATC 3 cut(s) 139, 181, 456
NlaIV GGNNCC 2 cut(s) 117, 437
NspV TTCGAA 1 cut(s) 152
PciSI GCTCTTC 1 cut(s) 270
PctI GAATGC 1 cut(s) 231
PdmI GAANNNNTTC 1 cut(s) 362
PkrI GCNGC 4 cut(s) 26, 103, 372, 379
PpuMI RGGWCCY 1 cut(s) 95
Psp124BI GAGCTC 1 cut(s) 265
Psp5II RGGWCCY 1 cut(s) 95
PspN4I GGNNCC 2 cut(s) 117, 437
PspPI GGNCC 2 cut(s) 95, 436
PspPPI RGGWCCY 1 cut(s) 95
PsuI RGATCY 2 cut(s) 181, 456
RsaI GTAC 3 cut(s) 85, 243, 351
RsaNI GTAC 3 cut(s) 84, 242, 350
RseI CAYNNNNRTG 1 cut(s) 410
SacI GAGCTC 1 cut(s) 265
SapI GCTCTTC 1 cut(s) 270
SaqAI TTAA 2 cut(s) 134, 246
SatI GCNGC 4 cut(s) 25, 102, 371, 378
Sau3AI GATC 3 cut(s) 139, 181, 456
Sau96I GGNCC 2 cut(s) 95, 436
SduI GDGCHC 2 cut(s) 265, 394
SetI ASST 7 cut(s) 100, 147, 199, 205, 214, 223, 265
SfuI TTCGAA 1 cut(s) 152
SinI GGWCC 1 cut(s) 95
SmiMI CAYNNNNRTG 1 cut(s) 410
Sse9I AATT 4 cut(s) 77, 122, 281, 341
SsiI CCGC 2 cut(s) 25, 57
SspI AATATT 1 cut(s) 256
SstI GAGCTC 1 cut(s) 265
TaaI ACNGT 2 cut(s) 251, 396
TaqI TCGA 1 cut(s) 152
TasI AATT 4 cut(s) 77, 122, 281, 341
TatI WGTACW 2 cut(s) 241, 349
TauI GCSGC 1 cut(s) 27
Tru1I TTAA 2 cut(s) 134, 246
Tru9I TTAA 2 cut(s) 134, 246
TscAI CASTG 1 cut(s) 399
TseI GCWGC 3 cut(s) 101, 370, 377
TspDTI ATGAA 5 cut(s) 37, 90, 179, 394, 428
TspGWI ACGGA 1 cut(s) 118
TspRI CASTG 1 cut(s) 399
VneI GTGCAC 1 cut(s) 390
VpaK11BI GGWCC 1 cut(s) 95
XapI RAATTY 3 cut(s) 77, 122, 341
XmnI GAANNNNTTC 1 cut(s) 362
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.