Rroxscaffold_2G00106120

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000194
Physical Location & Seq
Forward (+)
29690284 .. 29692359
2076 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00106120.1

Sequence Viewer

Length: 678 bp
ATGAGCAGGTTAATGTGTGAACTCCTAAGTATCAAAGTGGTGGATAATCCGGGTATCTACTTAGGACTCCCAACAATCTGGGGGAGGTCCAAAAAGGAGGCTCTTGGCTGCATCAAAGATAGAATTAGCAGGAAGATTGAGGGCTGGAAACAGAGTTCCTTGTCTATGGCTGGAAGAGAGATATTGATCAAGTCTGTTGCCACTGCTATACCATCTTATCCGATGGCCTGCTTTAAATTCCCTGCCAATATTTGTAATGATATAAACTCTCTACTTGGGAATTTTTGGTGGGGATCAAATGACAGTAGCAACAAGATTCATTGGAAAAATTGGGAGTCTCTTGGTCTTGCAAAAGATGCCGGGGGCATGGGATTCAGGGATTTACAGGATTTCAATAAGGCTCTACTAGCAAAACAATCCTGGAGAGTAATCCAGGACCCTCACTCTTTATGGGCAAGAGTTCTCAAAGCCCGGTACTTCCCCAATTGTGAATTTAAAGATGCTACTAAGGGGTACAGAGCGTCATGGGGCTGGTCTAGCTTGATTGAAGCTAAGGATATCATTATGAAAGGTTCTACTTGGCAGGTTATATATGGGTTGTCGATCAACATTTGGGAAGACAACTGGCTCCCTCCCCCTTTGTTGGCCCTATCTCATCTGGACAAAATGGTCCCATAA
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-CCHC_4 zf-RVT

Protein Analysis

225

Amino Acids

25.55

Weight (kDa)

9.36

Isoelectric Point (pI)

43.52

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34320 AT4G29090 AT5G42965
fragaria_vesca FvH4_1g19471 FvH4_1g29471 FvH4_1g29601 FvH4_2g04611 FvH4_2g05763 FvH4_2g11451 FvH4_2g11841 FvH4_3g10391 FvH4_3g21491 FvH4_3g21492 FvH4_3g32111 FvH4_3g35051 FvH4_4g06793 FvH4_5g08844 FvH4_5g15942 FvH4_5g18751 FvH4_5g27367 FvH4_6g11612 FvH4_6g20242 FvH4_6g27671 FvH4_6g31921 FvH4_7g32463
malus_domestica MD06G1107000.v1.1 MD07G1135800.v1.1 MD08G1205700.v1.1
prunus_persica Prupe.1G202000_v2.0.a1 Prupe.2G049100_v2.0.a1 Prupe.2G060500_v2.0.a1 Prupe.3G120300_v2.0.a1 Prupe.3G135000_v2.0.a1 Prupe.6G087800_v2.0.a1 Prupe.6G158500_v2.0.a1 Prupe.6G353900_v2.0.a1 Prupe.7G008600_v2.0.a1 Prupe.8G090500_v2.0.a1
pyrus_communis pycom01g21690 pycom02g19910 pycom04g18080 pycom07g08600 pycom07g18710 pycom07g26560 pycom08g03130 pycom08g13950 pycom09g06380 pycom10g13390 pycom10g22280 pycom11g04440 pycom11g10940 pycom12g04710 pycom13g08790 pycom15g31740 pycom17g14740 pycom17g24980
rosa_chinensis RchiOBHm_Chr1g0327801 RchiOBHm_Chr1g0347181 RchiOBHm_Chr1g0348821 RchiOBHm_Chr2g0157831 RchiOBHm_Chr5g0040851 RchiOBHm_Chr6g0249781 RchiOBHm_Chr7g0208461 RchiOBHm_Chr7g0210911 RchiOBHm_Chr7g0219141
rosa_laevigata RLG00000034326
rosa_multiflora Rmu_co8140276.1_g000001 Rmu_co8282095.1_g000001 Rmu_co8303311.1_g000001 Rmu_co8314215.1_g000001 Rmu_co8345435.1_g000001 Rmu_co8461745.1_g000001 Rmu_sc0000315.1_g000040 Rmu_sc0000487.1_g000014 Rmu_sc0000690.1_g000002 Rmu_sc0000808.1_g000001 Rmu_sc0000938.1_g000009 Rmu_sc0001260.1_g000002 Rmu_sc0001534.1_g000008 Rmu_sc0001669.1_g000003 Rmu_sc0001685.1_g000050 Rmu_sc0001838.1_g000007 Rmu_sc0002193.1_g000025 Rmu_sc0002308.1_g000058 Rmu_sc0002322.1_g000018 Rmu_sc0002529.1_g000008 Rmu_sc0002531.1_g000043 Rmu_sc0002754.1_g000022 Rmu_sc0002902.1_g000055 Rmu_sc0003627.1_g000005 Rmu_sc0003743.1_g000003 Rmu_sc0003765.1_g000016 Rmu_sc0003941.1_g000020 Rmu_sc0004038.1_g000011 Rmu_sc0004329.1_g000010 Rmu_sc0004476.1_g000002 Rmu_sc0004904.1_g000022 Rmu_sc0004988.1_g000017 Rmu_sc0005217.1_g000006 Rmu_sc0005257.1_g000010 Rmu_sc0005285.1_g000008 Rmu_sc0005687.1_g000001 Rmu_sc0006380.1_g000020 Rmu_sc0006922.1_g000004 Rmu_sc0007398.1_g000007 Rmu_sc0008279.1_g000019 Rmu_sc0009139.1_g000004 Rmu_sc0009158.1_g000001 Rmu_sc0010099.1_g000002 Rmu_sc0019043.1_g000001 Rmu_sc0022037.1_g000001 Rmu_sc0023291.1_g000001 Rmu_sc0031928.1_g000001 Rmu_sc0034436.1_g000002 Rmu_ssc0000126.1_g000001 Rmu_ssc0000151.1_g000016 Rmu_ssc0000152.1_g000009 Rmu_ssc0000395.1_g000031
rosa_roxburghii Rroxscaffold_1G00056570 Rroxscaffold_1G00058460 Rroxscaffold_2G00106120 Rroxscaffold_2G00106260 Rroxscaffold_6G00399080
rosa_rugosa Rorug02G0173300 Rorug02G0225600 Rorug03G0083300 Rorug03G0104900 Rorug04G0256500 Rorug05G0342600 Rorug06G0006200 Rorug06G0095200 Rorug06G0095600 Rorug06G0111500 Rorug07G0001200 Rorug07G0183100 Rorug07G0183100 Rorug07G0209000
rosa_samantha Rh2DG065400 Rh3DG315900 Rh4AG106100 Rh4BG362100 Rh4CG030200 Rh4DG239000 Rh4DG294000 Rh6DG304800 Rh7DG149500
rosa_wichuraiana Rw1G018070 Rw1G021220 Rw1G021820 Rw1G026430 Rw2G050800 Rw3G023330 Rw6G010050 Rw6G010440 Rw7G031930 Rw7G033860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 668
Acc36I ACCTGC 1 cut(s) 574
AclWI GGATC 1 cut(s) 301
AcsI RAATTY 3 cut(s) 236, 280, 491
AfaI GTAC 2 cut(s) 476, 515
AfiI CCNNNNNNNGG 1 cut(s) 643
AgsI TTSAA 2 cut(s) 394, 548
AjnI CCWGG 2 cut(s) 419, 432
AloI GAACNNNNNNTCC 2 cut(s) 139, 171
AluBI AGCT 2 cut(s) 540, 551
AluI AGCT 2 cut(s) 540, 551
Alw26I GTCTC 1 cut(s) 342
AlwI GGATC 1 cut(s) 301
AoxI GGCC 2 cut(s) 225, 645
ApeKI GCWGC 1 cut(s) 108
ApoI RAATTY 3 cut(s) 236, 280, 491
AspS9I GGNCC 4 cut(s) 87, 436, 646, 670
AsuC2I CCSGG 3 cut(s) 51, 361, 472
AvaII GGWCC 3 cut(s) 87, 436, 670
BbsI GAAGAC 1 cut(s) 624
BbvI GCAGC 1 cut(s) 95
BccI CCATC 2 cut(s) 217, 220
BciT130I CCWGG 2 cut(s) 421, 434
BclI TGATCA 1 cut(s) 186
BcnI CCSGG 3 cut(s) 51, 361, 472
BcoDI GTCTC 1 cut(s) 342
BfaI CTAG 2 cut(s) 407, 537
BfuAI ACCTGC 1 cut(s) 574
BisI GCNGC 1 cut(s) 109
BlsI GCNGC 1 cut(s) 110
Bme1390I CCNGG 5 cut(s) 51, 361, 421, 434, 472
Bme18I GGWCC 3 cut(s) 87, 436, 670
BmgT120I GGNCC 4 cut(s) 87, 436, 646, 670
BmiI GGNNCC 3 cut(s) 438, 629, 672
BmrFI CCNGG 5 cut(s) 51, 361, 421, 434, 472
BmsI GCATC 3 cut(s) 120, 346, 490
BpiI GAAGAC 1 cut(s) 624
BpmI CTGGAG 1 cut(s) 442
Bpu10I CCTNAGC 1 cut(s) 552
BpuMI CCSGG 3 cut(s) 51, 361, 472
BsaBI GATNNNNATC 1 cut(s) 185
BsaJI CCNNGG 1 cut(s) 360
Bsc4I CCNNNNNNNGG 1 cut(s) 643
Bse1I ACTGG 1 cut(s) 629
Bse8I GATNNNNATC 1 cut(s) 185
BseBI CCWGG 2 cut(s) 421, 434
BseDI CCNNGG 1 cut(s) 360
BseJI GATNNNNATC 1 cut(s) 185
BseLI CCNNNNNNNGG 1 cut(s) 643
BseNI ACTGG 1 cut(s) 629
BseXI GCAGC 1 cut(s) 95
BshFI GGCC 2 cut(s) 227, 647
BsiSI CCGG 3 cut(s) 50, 360, 472
BslFI GGGAC 1 cut(s) 656
BslI CCNNNNNNNGG 1 cut(s) 643
BsmAI GTCTC 1 cut(s) 342
BsmFI GGGAC 1 cut(s) 656
BsnI GGCC 2 cut(s) 227, 647
Bsp143I GATC 3 cut(s) 186, 293, 603
BspANI GGCC 2 cut(s) 227, 647
BspLI GGNNCC 3 cut(s) 438, 629, 672
BspMI ACCTGC 1 cut(s) 574
BspPI GGATC 1 cut(s) 301
BsrI ACTGG 1 cut(s) 629
BssECI CCNNGG 1 cut(s) 360
BssMI GATC 3 cut(s) 186, 293, 603
Bst2UI CCWGG 2 cut(s) 421, 434
Bst4CI ACNGT 1 cut(s) 305
Bst6I CTCTTC 1 cut(s) 169
BstAPI GCANNNNNTGC 1 cut(s) 356
BstC8I GCNNGC 1 cut(s) 229
BstDEI CTNAG 4 cut(s) 26, 61, 507, 552
BstKTI GATC 3 cut(s) 189, 296, 606
BstMAI GTCTC 1 cut(s) 342
BstMBI GATC 3 cut(s) 186, 293, 603
BstMWI GCNNNNNNNGC 3 cut(s) 356, 407, 537
BstNI CCWGG 2 cut(s) 421, 434
BstSCI CCNGG 5 cut(s) 49, 359, 419, 432, 470
BstV1I GCAGC 1 cut(s) 95
BstV2I GAAGAC 1 cut(s) 624
BstXI CCANNNNNNTGG 1 cut(s) 78
BsuRI GGCC 2 cut(s) 227, 647
BtsI GCAGTG 1 cut(s) 201
BtsIMutI CAGTG 1 cut(s) 201
BveI ACCTGC 1 cut(s) 574
Cac8I GCNNGC 1 cut(s) 229
Cfr13I GGNCC 4 cut(s) 87, 436, 646, 670
CseI GACGC 1 cut(s) 510
Csp6I GTAC 2 cut(s) 475, 514
CviAII CATG 2 cut(s) 367, 525
CviQI GTAC 2 cut(s) 475, 514
DdeI CTNAG 4 cut(s) 26, 61, 507, 552
DpnI GATC 3 cut(s) 188, 295, 605
DpnII GATC 3 cut(s) 186, 293, 603
DraI TTTAAA 2 cut(s) 235, 496
DrdI GACNNNNNNGTC 1 cut(s) 668
DseDI GACNNNNNNGTC 1 cut(s) 668
Eam1104I CTCTTC 1 cut(s) 169
EarI CTCTTC 1 cut(s) 169
Eco32I GATATC 1 cut(s) 559
Eco47I GGWCC 3 cut(s) 87, 436, 670
EcoO109I RGGNCCY 1 cut(s) 436
EcoRII CCWGG 2 cut(s) 419, 432
EcoRV GATATC 1 cut(s) 559
FaeI CATG 2 cut(s) 370, 528
FaqI GGGAC 1 cut(s) 656
FatI CATG 2 cut(s) 366, 524
FbaI TGATCA 1 cut(s) 186
Fnu4HI GCNGC 1 cut(s) 109
Fsp4HI GCNGC 1 cut(s) 109
FspBI CTAG 2 cut(s) 407, 537
GluI GCNGC 1 cut(s) 109
GsuI CTGGAG 1 cut(s) 442
HaeIII GGCC 2 cut(s) 227, 647
HapII CCGG 3 cut(s) 50, 360, 472
HgaI GACGC 1 cut(s) 510
Hin1II CATG 2 cut(s) 370, 528
HinfI GANTC 4 cut(s) 66, 316, 335, 372
HpaII CCGG 3 cut(s) 50, 360, 472
Hpy166II GTNNAC 1 cut(s) 20
Hpy188I TCNGA 1 cut(s) 222
Hpy188III TCNNGA 1 cut(s) 659
Hpy8I GTNNAC 1 cut(s) 20
HpyCH4III ACNGT 1 cut(s) 305
HpyCH4V TGCA 2 cut(s) 111, 350
HpyF10VI GCNNNNNNNGC 3 cut(s) 356, 407, 537
HpyF3I CTNAG 4 cut(s) 26, 61, 507, 552
Hsp92II CATG 2 cut(s) 370, 528
Ksp22I TGATCA 1 cut(s) 186
Kzo9I GATC 3 cut(s) 186, 293, 603
LmnI GCTCC 1 cut(s) 633
Lsp1109I GCAGC 1 cut(s) 95
LweI GCATC 3 cut(s) 120, 346, 490
MaeI CTAG 2 cut(s) 407, 537
MalI GATC 3 cut(s) 188, 295, 605
MboI GATC 3 cut(s) 186, 293, 603
MboII GAAGA 3 cut(s) 145, 186, 629
MfeI CAATTG 1 cut(s) 484
MluCI AATT 6 cut(s) 123, 236, 280, 328, 484, 491
MlyI GAGTC 2 cut(s) 60, 344
MnlI CCTC 5 cut(s) 78, 91, 133, 450, 642
MseI TTAA 3 cut(s) 11, 234, 495
MspI CCGG 3 cut(s) 50, 360, 472
MspR9I CCNGG 5 cut(s) 51, 361, 421, 434, 472
MunI CAATTG 1 cut(s) 484
MvaI CCWGG 2 cut(s) 421, 434
MwoI GCNNNNNNNGC 3 cut(s) 356, 407, 537
NciI CCSGG 3 cut(s) 51, 361, 472
NdeII GATC 3 cut(s) 186, 293, 603
NlaIII CATG 2 cut(s) 370, 528
NlaIV GGNNCC 3 cut(s) 438, 629, 672
PfeI GAWTC 2 cut(s) 316, 372
PfoI TCCNGGA 2 cut(s) 419, 432
PkrI GCNGC 1 cut(s) 110
PleI GAGTC 2 cut(s) 60, 343
PpsI GAGTC 2 cut(s) 60, 343
PpuMI RGGWCCY 1 cut(s) 436
Psp5II RGGWCCY 1 cut(s) 436
Psp6I CCWGG 2 cut(s) 419, 432
PspGI CCWGG 2 cut(s) 419, 432
PspN4I GGNNCC 3 cut(s) 438, 629, 672
PspPI GGNCC 4 cut(s) 87, 436, 646, 670
PspPPI RGGWCCY 1 cut(s) 436
RsaI GTAC 2 cut(s) 476, 515
RsaNI GTAC 2 cut(s) 475, 514
SaqAI TTAA 3 cut(s) 11, 234, 495
SatI GCNGC 1 cut(s) 109
Sau3AI GATC 3 cut(s) 186, 293, 603
Sau96I GGNCC 4 cut(s) 87, 436, 646, 670
SchI GAGTC 2 cut(s) 60, 344
ScrFI CCNGG 5 cut(s) 51, 361, 421, 434, 472
SetI ASST 6 cut(s) 11, 89, 542, 553, 574, 588
SfaNI GCATC 3 cut(s) 120, 346, 490
SinI GGWCC 3 cut(s) 87, 436, 670
Sse9I AATT 6 cut(s) 123, 236, 280, 328, 484, 491
SspI AATATT 1 cut(s) 250
SspMI CTAG 2 cut(s) 407, 537
StyD4I CCNGG 5 cut(s) 49, 359, 419, 432, 470
TaaI ACNGT 1 cut(s) 305
TaqI TCGA 1 cut(s) 602
TasI AATT 6 cut(s) 123, 236, 280, 328, 484, 491
TfiI GAWTC 2 cut(s) 316, 372
Tru1I TTAA 3 cut(s) 11, 234, 495
Tru9I TTAA 3 cut(s) 11, 234, 495
TscAI CASTG 1 cut(s) 208
TseI GCWGC 1 cut(s) 108
TspDTI ATGAA 2 cut(s) 308, 581
TspRI CASTG 1 cut(s) 208
VpaK11BI GGWCC 3 cut(s) 87, 436, 670
XapI RAATTY 3 cut(s) 236, 280, 491
XspI CTAG 2 cut(s) 407, 537
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.