Rroxscaffold_7G00171110

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000204
Physical Location & Seq
Forward (+)
11477779 .. 11478504
726 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00171110.1

Sequence Viewer

Length: 534 bp
ATGTTGAAGAGAAGAAATGATGGAGATGAGTCTTTAGCTTGGGCAGCATTTGGAGTGTGGAGGTTGTGGAAATGTCGGAACCATGCACATGCAGTTTGGGGGAGAAATTATTCAGCCCCAACAAGCATTGGAGGGGTGGTGAGTAGTGGACCGAGCTCAGAAGTGGGGTGGAGCAGATCTGACCTAGGATGGATCAAATGTAATTCTGATGGTGCTTGGAGGAGTAAAACTAGGTGGAGCGGTGCAGGTTGGGTGGTTCGAGATCATGAAGGTCATTTCCTCCGTGGTGGCTGCAGTGGGCGTTTCATAAGTGAATCTGCAGTTATGGTGGAGGCAGTGGCAGTGCGTGATGGTTTGGACTTTGGACTTTGGAGGGGTGCCTTGAGGGTGGTTGGAAGAAAGTGGAATAATGAAGTATCCCGTCTACTAGCTACTCATGCAGTCGGTTGTGATAGGGCATGTAGCTGGGTTGATAATCCCCCTGATGGGGTTGCTATTGCCTTAGCTATGGATGTAACAAATTCTAGCTTTTAA
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
RVT_1 RVT_3 zf-RVT

Protein Analysis

177

Amino Acids

19.4

Weight (kDa)

9.22

Isoelectric Point (pI)

39.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 68 - 131 2.4e-07 Reverse transcriptase-like
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: OG0000204)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04625 AT1G27220 AT1G27250 AT1G27870 AT1G47497 AT1G47497 AT1G50160 AT1G52990 AT1G52990 AT1G77815 AT2G02650 AT2G04420 AT2G11205 AT2G13980 AT2G33160 AT2G46460 AT3G09510 AT3G23320 AT3G25270 AT3G32130 AT4G03292 AT4G09775 AT5G26617 AT5G44470 AT5G52115 AT5G65005
fragaria_vesca FvH4_1g25222 FvH4_1g28481 FvH4_3g03751 FvH4_3g24081 FvH4_3g35341 FvH4_5g31961 FvH4_6g20891 FvH4_6g23253 FvH4_6g31361 FvH4_6g53051
malus_domestica MD14G1209300.v1.1
prunus_persica Prupe.1G168800_v2.0.a1 Prupe.1G509200_v2.0.a1 Prupe.2G042000_v2.0.a1 Prupe.2G133200_v2.0.a1 Prupe.2G140300_v2.0.a1 Prupe.3G103800_v2.0.a1 Prupe.4G217300_v2.0.a1 Prupe.4G245300_v2.0.a1 Prupe.5G002600_v2.0.a1 Prupe.5G134600_v2.0.a1 Prupe.6G185900_v2.0.a1 Prupe.6G308300_v2.0.a1 Prupe.7G010700_v2.0.a1 Prupe.8G078100_v2.0.a1 Prupe.8G128400_v2.0.a1
pyrus_communis pycom01g14230 pycom03g12410 pycom08g15160 pycom08g21670 pycom10g25730 pycom10g25740 pycom11g15380 pycom14g10440 pycom14g11510 pycom15g31840 pycom16g02370
rosa_chinensis RchiOBHm_Chr4g0440421 RchiOBHm_Chr5g0005841 RchiOBHm_Chr6g0289481 RchiOBHm_Chr7g0218671
rosa_laevigata RLG00000011653 RLG00000031330 RLG00000031331 RLG00000032722
rosa_multiflora Rmu_co8243061.1_g000001 Rmu_sc0000470.1_g000036 Rmu_sc0000581.1_g000008 Rmu_sc0000666.1_g000017 Rmu_sc0000905.1_g000019 Rmu_sc0000976.1_g000013 Rmu_sc0001066.1_g000001 Rmu_sc0001103.1_g000007 Rmu_sc0001180.1_g000001 Rmu_sc0001643.1_g000034 Rmu_sc0001759.1_g000007 Rmu_sc0001850.1_g000051 Rmu_sc0001910.1_g000008 Rmu_sc0001981.1_g000015 Rmu_sc0001981.1_g000029 Rmu_sc0002209.1_g000015 Rmu_sc0002406.1_g000010 Rmu_sc0003743.1_g000002 Rmu_sc0006416.1_g000026 Rmu_sc0006513.1_g000006 Rmu_sc0006577.1_g000010 Rmu_sc0014652.1_g000001 Rmu_sc0016202.1_g000003
rosa_roxburghii Rroxscaffold_1G00001530 Rroxscaffold_1G00047250 Rroxscaffold_5G00340720 Rroxscaffold_7G00171110 Rroxscaffold_7G00177650
rosa_rugosa Rorug01G0044800 Rorug01G0204500 Rorug01G0224700 Rorug01G0267800 Rorug02G0038400 Rorug02G0107100 Rorug02G0180700 Rorug02G0363800 Rorug02G0374300 Rorug02G0491400 Rorug02G0491400 Rorug03G0104200 Rorug03G0109800 Rorug03G0334200 Rorug04G0007100 Rorug04G0061400.1 Rorug04G0080000 Rorug05G0152200 Rorug05G0188800 Rorug05G0234800 Rorug05G0239900 Rorug05G0284800 Rorug06G0044700 Rorug06G0205700 Rorug06G0266900 Rorug06G0440700 Rorug07G0037400 Rorug07G0192100 Rorug07G0196900 Rorug07G0237500 Rorug07G0336400.1 RorugPtG0002500.1
rosa_samantha Rh1BG014800 Rh1CG017500 Rh2CG332500 Rh3BG371800 Rh5AG046000 Rh5AG046100 Rh5BG044700 Rh5BG044800 Rh5BG248000 Rh5CG053600 Rh5CG053700 Rh5DG044500 Rh5DG044600 Rh6AG052800 Rh6AG315400 Rh6DG021400 Rh7AG409500
rosa_wichuraiana Rw3G007750 Rw3G018750 Rw4G008820 Rw5G004630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 236
AccB1I GGYRCC 1 cut(s) 377
AccBSI CCGCTC 1 cut(s) 240
AccI GTMKAC 1 cut(s) 424
AciI CCGC 1 cut(s) 240
AclWI GGATC 1 cut(s) 200
AcsI RAATTY 1 cut(s) 520
AfiI CCNNNNNNNGG 3 cut(s) 485, 486, 487
AgsI TTSAA 1 cut(s) 7
AluBI AGCT 6 cut(s) 38, 156, 431, 465, 506, 528
AluI AGCT 6 cut(s) 38, 156, 431, 465, 506, 528
Alw21I GWGCWC 1 cut(s) 158
AlwI GGATC 1 cut(s) 200
ApeKI GCWGC 2 cut(s) 44, 291
ApoI RAATTY 1 cut(s) 520
Asp700I GAANNNNTTC 1 cut(s) 109
AspA2I CCTAGG 1 cut(s) 184
AspS9I GGNCC 1 cut(s) 149
AsuHPI GGTGA 1 cut(s) 151
AvaII GGWCC 1 cut(s) 149
AvrII CCTAGG 1 cut(s) 184
BanI GGYRCC 1 cut(s) 377
BanII GRGCYC 1 cut(s) 158
Bbv12I GWGCWC 1 cut(s) 158
BbvI GCAGC 2 cut(s) 56, 278
BccI CCATC 5 cut(s) 14, 183, 203, 344, 479
BciVI GTATCC 1 cut(s) 427
BfaI CTAG 4 cut(s) 185, 231, 428, 525
BfmI CTRYAG 2 cut(s) 292, 318
BfuAI ACCTGC 1 cut(s) 236
BfuI GTATCC 1 cut(s) 427
BglII AGATCT 1 cut(s) 176
BisI GCNGC 2 cut(s) 45, 292
BlnI CCTAGG 1 cut(s) 184
BlsI GCNGC 2 cut(s) 46, 293
Bme18I GGWCC 1 cut(s) 149
BmgT120I GGNCC 1 cut(s) 149
BmiI GGNNCC 2 cut(s) 80, 379
Bpu10I CCTNAGC 1 cut(s) 502
BpuEI CTTGAG 1 cut(s) 403
BsaJI CCNNGG 2 cut(s) 184, 283
BsaXI ACNNNNNCTCC 2 cut(s) 123, 153
Bsc4I CCNNNNNNNGG 3 cut(s) 485, 486, 487
BseDI CCNNGG 2 cut(s) 184, 283
BseGI GGATG 2 cut(s) 194, 517
BseLI CCNNNNNNNGG 3 cut(s) 485, 486, 487
BseMII CTCAG 1 cut(s) 171
BseRI GAGGAG 1 cut(s) 235
BseXI GCAGC 2 cut(s) 56, 278
BseYI CCCAGC 1 cut(s) 465
BsgI GTGCAG 1 cut(s) 264
BshNI GGYRCC 1 cut(s) 377
BsiHKAI GWGCWC 1 cut(s) 158
BslI CCNNNNNNNGG 3 cut(s) 485, 486, 487
Bsp1286I GDGCHC 1 cut(s) 158
Bsp143I GATC 3 cut(s) 176, 192, 262
BspACI CCGC 1 cut(s) 240
BspCNI CTCAG 1 cut(s) 170
BspHI TCATGA 1 cut(s) 265
BspLI GGNNCC 2 cut(s) 80, 379
BspMAI CTGCAG 2 cut(s) 296, 322
BspMI ACCTGC 1 cut(s) 236
BspPI GGATC 1 cut(s) 200
BspT107I GGYRCC 1 cut(s) 377
BsrBI CCGCTC 1 cut(s) 240
BssECI CCNNGG 2 cut(s) 184, 283
BssMI GATC 3 cut(s) 176, 192, 262
BssT1I CCWWGG 1 cut(s) 184
Bst6I CTCTTC 1 cut(s) 2
BstDEI CTNAG 2 cut(s) 157, 502
BstDSI CCRYGG 1 cut(s) 283
BstF5I GGATG 2 cut(s) 194, 517
BstKTI GATC 3 cut(s) 179, 195, 265
BstMBI GATC 3 cut(s) 176, 192, 262
BstMWI GCNNNNNNNGC 2 cut(s) 44, 437
BstNSI RCATGY 2 cut(s) 92, 462
BstSFI CTRYAG 2 cut(s) 292, 318
BstV1I GCAGC 2 cut(s) 56, 278
BstX2I RGATCY 1 cut(s) 176
BstYI RGATCY 1 cut(s) 176
BsuI GTATCC 1 cut(s) 427
BtgI CCRYGG 1 cut(s) 283
BtsCI GGATG 2 cut(s) 194, 517
BtsI GCAGTG 3 cut(s) 301, 342, 348
BtsIMutI CAGTG 3 cut(s) 301, 342, 348
BveI ACCTGC 1 cut(s) 236
CciI TCATGA 1 cut(s) 265
Cfr13I GGNCC 1 cut(s) 149
CviAII CATG 5 cut(s) 83, 89, 266, 437, 459
CviJI RGCY 8 cut(s) 38, 116, 156, 291, 431, 465, 506, 528
CviKI_1 RGCY 8 cut(s) 38, 116, 156, 291, 431, 465, 506, 528
DdeI CTNAG 2 cut(s) 157, 502
DpnI GATC 3 cut(s) 178, 194, 264
DpnII GATC 3 cut(s) 176, 192, 262
Eam1104I CTCTTC 1 cut(s) 2
EarI CTCTTC 1 cut(s) 2
Ecl136II GAGCTC 1 cut(s) 156
Eco130I CCWWGG 1 cut(s) 184
Eco24I GRGCYC 1 cut(s) 158
Eco47I GGWCC 1 cut(s) 149
Eco53kI GAGCTC 1 cut(s) 156
EcoICRI GAGCTC 1 cut(s) 156
EcoT14I CCWWGG 1 cut(s) 184
EcoT38I GRGCYC 1 cut(s) 158
ErhI CCWWGG 1 cut(s) 184
FaeI CATG 5 cut(s) 86, 92, 269, 440, 462
FaiI YATR 8 cut(s) 84, 90, 267, 308, 326, 438, 460, 509
FatI CATG 5 cut(s) 82, 88, 265, 436, 458
FblI GTMKAC 1 cut(s) 424
Fnu4HI GCNGC 2 cut(s) 45, 292
FokI GGATG 2 cut(s) 201, 524
FriOI GRGCYC 1 cut(s) 158
Fsp4HI GCNGC 2 cut(s) 45, 292
FspBI CTAG 4 cut(s) 185, 231, 428, 525
GluI GCNGC 2 cut(s) 45, 292
GsaI CCCAGC 1 cut(s) 469
Hin1II CATG 5 cut(s) 86, 92, 269, 440, 462
HinfI GANTC 2 cut(s) 29, 314
HphI GGTGA 1 cut(s) 151
Hpy166II GTNNAC 2 cut(s) 149, 425
Hpy188I TCNGA 4 cut(s) 78, 160, 181, 208
Hpy188III TCNNGA 2 cut(s) 260, 266
Hpy8I GTNNAC 2 cut(s) 149, 425
HpyAV CCTTC 1 cut(s) 263
HpyCH4V TGCA 6 cut(s) 86, 92, 245, 294, 320, 440
HpyF10VI GCNNNNNNNGC 2 cut(s) 44, 437
HpyF3I CTNAG 2 cut(s) 157, 502
Hsp92II CATG 5 cut(s) 86, 92, 269, 440, 462
Kzo9I GATC 3 cut(s) 176, 192, 262
LmnI GCTCC 2 cut(s) 171, 237
LpnPI CCDG 3 cut(s) 231, 451, 495
Lsp1109I GCAGC 2 cut(s) 56, 278
MaeI CTAG 4 cut(s) 185, 231, 428, 525
MaeIII GTNAC 1 cut(s) 514
MalI GATC 3 cut(s) 178, 194, 264
MbiI CCGCTC 1 cut(s) 240
MboI GATC 3 cut(s) 176, 192, 262
MboII GAAGA 3 cut(s) 19, 24, 408
MflI RGATCY 1 cut(s) 176
MhlI GDGCHC 1 cut(s) 158
MluCI AATT 3 cut(s) 106, 202, 520
MlyI GAGTC 1 cut(s) 38
MmeI TCCRAC 2 cut(s) 56, 373
MnlI CCTC 7 cut(s) 54, 125, 213, 290, 325, 366, 378
MroXI GAANNNNTTC 1 cut(s) 109
MseI TTAA 1 cut(s) 532
MslI CAYNNNNRTG 1 cut(s) 87
MwoI GCNNNNNNNGC 2 cut(s) 44, 437
NdeII GATC 3 cut(s) 176, 192, 262
NlaIII CATG 5 cut(s) 86, 92, 269, 440, 462
NlaIV GGNNCC 2 cut(s) 80, 379
NspI RCATGY 2 cut(s) 92, 462
PagI TCATGA 1 cut(s) 265
PdmI GAANNNNTTC 1 cut(s) 109
PfeI GAWTC 1 cut(s) 314
PkrI GCNGC 2 cut(s) 46, 293
PleI GAGTC 1 cut(s) 37
PpsI GAGTC 1 cut(s) 37
Psp124BI GAGCTC 1 cut(s) 158
PspFI CCCAGC 1 cut(s) 465
PspN4I GGNNCC 2 cut(s) 80, 379
PspPI GGNCC 1 cut(s) 149
PstI CTGCAG 2 cut(s) 296, 322
PsuI RGATCY 1 cut(s) 176
RseI CAYNNNNRTG 1 cut(s) 87
SacI GAGCTC 1 cut(s) 158
SaqAI TTAA 1 cut(s) 532
SatI GCNGC 2 cut(s) 45, 292
Sau3AI GATC 3 cut(s) 176, 192, 262
Sau96I GGNCC 1 cut(s) 149
SchI GAGTC 1 cut(s) 38
SduI GDGCHC 1 cut(s) 158
SfcI CTRYAG 2 cut(s) 292, 318
SinI GGWCC 1 cut(s) 149
SmiMI CAYNNNNRTG 1 cut(s) 87
SmlI CTYRAG 1 cut(s) 382
SmoI CTYRAG 1 cut(s) 382
Sse9I AATT 3 cut(s) 106, 202, 520
SsiI CCGC 1 cut(s) 240
SspMI CTAG 4 cut(s) 185, 231, 428, 525
SstI GAGCTC 1 cut(s) 158
StyI CCWWGG 1 cut(s) 184
TaqI TCGA 1 cut(s) 259
TaqII GACCGA 1 cut(s) 166
TasI AATT 3 cut(s) 106, 202, 520
TfiI GAWTC 1 cut(s) 314
Tru1I TTAA 1 cut(s) 532
Tru9I TTAA 1 cut(s) 532
TscAI CASTG 3 cut(s) 301, 342, 348
TseI GCWGC 2 cut(s) 44, 291
TspDTI ATGAA 3 cut(s) 282, 295, 426
TspGWI ACGGA 1 cut(s) 272
TspRI CASTG 3 cut(s) 301, 342, 348
VpaK11BI GGWCC 1 cut(s) 149
XapI RAATTY 1 cut(s) 520
XceI RCATGY 2 cut(s) 92, 462
XmaJI CCTAGG 1 cut(s) 184
XmiI GTMKAC 1 cut(s) 424
XmnI GAANNNNTTC 1 cut(s) 109
XspI CTAG 4 cut(s) 185, 231, 428, 525
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.