Rroxscaffold_3G00249640

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0021647
Physical Location & Seq
Forward (+)
43423744 .. 43428061
4318 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00249640.1

Sequence Viewer

Length: 567 bp
ATGGCTTTGTTGAAGATGTGGCCTCTTAACTGGCGGTGGCTTTCGCCATGCATGATGGGGGCAGGCTATACCGATACTGTTCCGAACAAGGGGGAGGACGCAGACTTTTTCTGGATCTCACTCCTACAAGCAGAAGGTCCTCACTACGTGACCATGGTTTACAAGAGGGCAATGATGGTGATTGGTGATTATGACGGCCTCAGTGATGTGATGGATGTTCCGTTCAATCGCTTGCCTATTTGGGTCGAGATCCATGGATTGCTGCTTGCTTACACTGCGACCATATGTCCGCAAAAGCTGGGATCTTTTTGGCCGATCAGTTTCTCCACGTGGACTAGCATCACAGATTCTAGTCAAACAACATTTTGGTCCTTAAAAACTGATTCGGCTGACTCTTCAGCCAAGAAGAAAAAGTGGCCTCTTCGTTGGTTACAAACTCACGAGTGCTTTCCTTCTGGACCAGAAGATCTACGACCAGTTTCTTGGAGGAAAACAAATTTAGTTTGTTTGTTAGAATCGGCTAAACAGTTTTTGGTTCACTTGGATGGAAGTCGAGACGGTACTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00670 ko01100 ko01110 ko01130 ko01523 map00230 map00670 map01100 map01110 map01130 map01523
Pfam Domains
Protein Families
DDE_Tnp_1_7 DUF4283 RVT_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

188

Amino Acids

21.5

Weight (kDa)

6.41

Isoelectric Point (pI)

51.81

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0021647)

Species Orthologous Gene IDs
rosa_multiflora Rmu_co7990260.1_g000001 Rmu_sc0001701.1_g000006 Rmu_sc0031054.1_g000001
rosa_roxburghii Rroxscaffold_3G00249640
rosa_samantha Rh4BG098200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 34, 290
AclWI GGATC 3 cut(s) 122, 244, 310
AcoI YGGCCR 1 cut(s) 311
AcsI RAATTY 1 cut(s) 496
AcuI CTGAAG 1 cut(s) 381
AcvI CACGTG 1 cut(s) 330
AdeI CACNNNGTG 1 cut(s) 148
AfaI GTAC 1 cut(s) 562
AfiI CCNNNNNNNGG 1 cut(s) 89
AgsI TTSAA 2 cut(s) 13, 226
AhdI GACNNNNNGTC 1 cut(s) 285
AloI GAACNNNNNNTCC 2 cut(s) 206, 238
AluBI AGCT 1 cut(s) 298
AluI AGCT 1 cut(s) 298
Alw26I GTCTC 1 cut(s) 549
AlwI GGATC 3 cut(s) 122, 244, 310
AoxI GGCC 4 cut(s) 20, 196, 311, 416
ApeKI GCWGC 1 cut(s) 262
ApoI RAATTY 1 cut(s) 496
AspS9I GGNCC 3 cut(s) 137, 369, 458
AsuHPI GGTGA 2 cut(s) 190, 197
AvaII GGWCC 3 cut(s) 137, 369, 458
BauI CACGAG 1 cut(s) 440
BbrPI CACGTG 1 cut(s) 330
BbvI GCAGC 1 cut(s) 249
BccI CCATC 4 cut(s) 49, 169, 205, 539
BceAI ACGGC 1 cut(s) 211
BcoDI GTCTC 1 cut(s) 549
BfaI CTAG 2 cut(s) 336, 351
BglII AGATCT 1 cut(s) 466
BisI GCNGC 1 cut(s) 263
BlsI GCNGC 1 cut(s) 264
Bme18I GGWCC 3 cut(s) 137, 369, 458
BmeRI GACNNNNNGTC 1 cut(s) 285
BmgT120I GGNCC 3 cut(s) 137, 369, 458
BmsI GCATC 1 cut(s) 348
BsaAI YACGTR 2 cut(s) 148, 330
BsaJI CCNNGG 2 cut(s) 153, 253
Bsc4I CCNNNNNNNGG 1 cut(s) 89
Bse1I ACTGG 2 cut(s) 35, 476
Bse3DI GCAATG 1 cut(s) 177
BseDI CCNNGG 2 cut(s) 153, 253
BseGI GGATG 2 cut(s) 220, 550
BseLI CCNNNNNNNGG 1 cut(s) 89
BseMI GCAATG 1 cut(s) 177
BseMII CTCAG 1 cut(s) 214
BseNI ACTGG 2 cut(s) 35, 476
BseXI GCAGC 1 cut(s) 249
BseYI CCCAGC 1 cut(s) 298
BshFI GGCC 4 cut(s) 22, 198, 313, 418
BslI CCNNNNNNNGG 1 cut(s) 89
BsmAI GTCTC 1 cut(s) 549
BsmBI CGTCTC 1 cut(s) 549
BsnI GGCC 4 cut(s) 22, 198, 313, 418
Bsp143I GATC 5 cut(s) 114, 249, 302, 315, 466
Bsp19I CCATGG 2 cut(s) 153, 253
BspACI CCGC 2 cut(s) 34, 290
BspANI GGCC 4 cut(s) 22, 198, 313, 418
BspCNI CTCAG 1 cut(s) 213
BspPI GGATC 3 cut(s) 122, 244, 310
BsrDI GCAATG 1 cut(s) 177
BsrI ACTGG 2 cut(s) 35, 476
BssECI CCNNGG 2 cut(s) 153, 253
BssMI GATC 5 cut(s) 114, 249, 302, 315, 466
BssSI CACGAG 1 cut(s) 440
BssT1I CCWWGG 2 cut(s) 153, 253
Bst2BI CACGAG 1 cut(s) 440
Bst4CI ACNGT 3 cut(s) 79, 528, 560
Bst6I CTCTTC 2 cut(s) 400, 426
BstBAI YACGTR 2 cut(s) 148, 330
BstC8I GCNNGC 3 cut(s) 64, 233, 267
BstDEI CTNAG 1 cut(s) 200
BstDSI CCRYGG 2 cut(s) 153, 253
BstF5I GGATG 2 cut(s) 220, 550
BstKTI GATC 5 cut(s) 117, 252, 305, 318, 469
BstMAI GTCTC 1 cut(s) 549
BstMBI GATC 5 cut(s) 114, 249, 302, 315, 466
BstMWI GCNNNNNNNGC 1 cut(s) 275
BstV1I GCAGC 1 cut(s) 249
BstX2I RGATCY 4 cut(s) 114, 249, 302, 466
BstXI CCANNNNNNTGG 1 cut(s) 483
BstYI RGATCY 4 cut(s) 114, 249, 302, 466
BsuRI GGCC 4 cut(s) 22, 198, 313, 418
BtgI CCRYGG 2 cut(s) 153, 253
BtsCI GGATG 2 cut(s) 220, 550
BtsI GCAGTG 1 cut(s) 273
BtsIMutI CAGTG 2 cut(s) 208, 273
Cac8I GCNNGC 3 cut(s) 64, 233, 267
Cfr13I GGNCC 3 cut(s) 137, 369, 458
CseI GACGC 1 cut(s) 107
Csp6I GTAC 1 cut(s) 561
CviAII CATG 4 cut(s) 48, 52, 154, 254
CviQI GTAC 1 cut(s) 561
DdeI CTNAG 1 cut(s) 200
DpnI GATC 5 cut(s) 116, 251, 304, 317, 468
DpnII GATC 5 cut(s) 114, 249, 302, 315, 466
DraIII CACNNNGTG 1 cut(s) 148
DriI GACNNNNNGTC 1 cut(s) 285
EaeI YGGCCR 1 cut(s) 311
Eam1104I CTCTTC 2 cut(s) 400, 426
Eam1105I GACNNNNNGTC 1 cut(s) 285
EarI CTCTTC 2 cut(s) 400, 426
Eco130I CCWWGG 2 cut(s) 153, 253
Eco47I GGWCC 3 cut(s) 137, 369, 458
Eco57I CTGAAG 1 cut(s) 381
Eco72I CACGTG 1 cut(s) 330
EcoO109I RGGNCCY 1 cut(s) 137
EcoT14I CCWWGG 2 cut(s) 153, 253
EcoT22I ATGCAT 1 cut(s) 53
ErhI CCWWGG 2 cut(s) 153, 253
Esp3I CGTCTC 1 cut(s) 549
FaeI CATG 4 cut(s) 51, 55, 157, 257
FaiI YATR 8 cut(s) 49, 53, 69, 155, 192, 255, 284, 286
FatI CATG 4 cut(s) 47, 51, 153, 253
FauNDI CATATG 1 cut(s) 284
Fnu4HI GCNGC 1 cut(s) 263
FokI GGATG 2 cut(s) 227, 557
Fsp4HI GCNGC 1 cut(s) 263
FspBI CTAG 2 cut(s) 336, 351
GluI GCNGC 1 cut(s) 263
GsaI CCCAGC 1 cut(s) 302
HaeIII GGCC 4 cut(s) 22, 198, 313, 418
HgaI GACGC 1 cut(s) 107
Hin1II CATG 4 cut(s) 51, 55, 157, 257
HinfI GANTC 4 cut(s) 347, 383, 392, 515
HphI GGTGA 2 cut(s) 190, 197
Hpy166II GTNNAC 3 cut(s) 160, 333, 538
Hpy188I TCNGA 1 cut(s) 84
Hpy188III TCNNGA 5 cut(s) 112, 247, 440, 456, 554
Hpy8I GTNNAC 3 cut(s) 160, 333, 538
HpyAV CCTTC 2 cut(s) 128, 462
HpyCH4III ACNGT 3 cut(s) 79, 528, 560
HpyCH4IV ACGT 2 cut(s) 147, 329
HpyCH4V TGCA 1 cut(s) 51
HpyF10VI GCNNNNNNNGC 1 cut(s) 275
HpyF3I CTNAG 1 cut(s) 200
HpySE526I ACGT 2 cut(s) 147, 329
Hsp92II CATG 4 cut(s) 51, 55, 157, 257
Kzo9I GATC 5 cut(s) 114, 249, 302, 315, 466
LpnPI CCDG 7 cut(s) 16, 48, 97, 284, 441, 474, 489
Lsp1109I GCAGC 1 cut(s) 249
LweI GCATC 1 cut(s) 348
MaeI CTAG 2 cut(s) 336, 351
MaeII ACGT 2 cut(s) 147, 329
MaeIII GTNAC 2 cut(s) 148, 429
MalI GATC 5 cut(s) 116, 251, 304, 317, 468
MboI GATC 5 cut(s) 114, 249, 302, 315, 466
MboII GAAGA 5 cut(s) 25, 387, 413, 418, 476
MflI RGATCY 4 cut(s) 114, 249, 302, 466
MluCI AATT 1 cut(s) 496
MlyI GAGTC 1 cut(s) 386
MnlI CCTC 7 cut(s) 33, 88, 150, 159, 209, 429, 480
Mph1103I ATGCAT 1 cut(s) 53
MseI TTAA 3 cut(s) 27, 374, 565
MslI CAYNNNNRTG 1 cut(s) 543
MwoI GCNNNNNNNGC 1 cut(s) 275
NcoI CCATGG 2 cut(s) 153, 253
NdeI CATATG 1 cut(s) 284
NdeII GATC 5 cut(s) 114, 249, 302, 315, 466
NlaIII CATG 4 cut(s) 51, 55, 157, 257
NmuCI GTSAC 1 cut(s) 148
NsiI ATGCAT 1 cut(s) 53
PfeI GAWTC 3 cut(s) 347, 383, 515
PkrI GCNGC 1 cut(s) 264
PleI GAGTC 1 cut(s) 386
PmaCI CACGTG 1 cut(s) 330
PmlI CACGTG 1 cut(s) 330
PpsI GAGTC 1 cut(s) 386
Ppu21I YACGTR 2 cut(s) 148, 330
PpuMI RGGWCCY 1 cut(s) 137
Psp5II RGGWCCY 1 cut(s) 137
PspCI CACGTG 1 cut(s) 330
PspFI CCCAGC 1 cut(s) 298
PspPI GGNCC 3 cut(s) 137, 369, 458
PspPPI RGGWCCY 1 cut(s) 137
PsuI RGATCY 4 cut(s) 114, 249, 302, 466
RsaI GTAC 1 cut(s) 562
RsaNI GTAC 1 cut(s) 561
RseI CAYNNNNRTG 1 cut(s) 543
SaqAI TTAA 3 cut(s) 27, 374, 565
SatI GCNGC 1 cut(s) 263
Sau3AI GATC 5 cut(s) 114, 249, 302, 315, 466
Sau96I GGNCC 3 cut(s) 137, 369, 458
SchI GAGTC 1 cut(s) 386
SetI ASST 4 cut(s) 139, 150, 300, 332
SfaNI GCATC 1 cut(s) 348
SinI GGWCC 3 cut(s) 137, 369, 458
SmiMI CAYNNNNRTG 1 cut(s) 543
Sse9I AATT 1 cut(s) 496
SsiI CCGC 2 cut(s) 34, 290
SspMI CTAG 2 cut(s) 336, 351
StyI CCWWGG 2 cut(s) 153, 253
TaaI ACNGT 3 cut(s) 79, 528, 560
TaiI ACGT 2 cut(s) 150, 332
TaqI TCGA 2 cut(s) 246, 553
TasI AATT 1 cut(s) 496
TfiI GAWTC 3 cut(s) 347, 383, 515
Tru1I TTAA 3 cut(s) 27, 374, 565
Tru9I TTAA 3 cut(s) 27, 374, 565
TscAI CASTG 2 cut(s) 208, 280
TseFI GTSAC 1 cut(s) 148
TseI GCWGC 1 cut(s) 262
Tsp45I GTSAC 1 cut(s) 148
TspGWI ACGGA 1 cut(s) 210
TspRI CASTG 2 cut(s) 208, 280
VpaK11BI GGWCC 3 cut(s) 137, 369, 458
XapI RAATTY 1 cut(s) 496
XspI CTAG 2 cut(s) 336, 351
Zsp2I ATGCAT 1 cut(s) 53
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.