Rroxscaffold_5G00339170

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000333
Physical Location & Seq
Reverse (-)
7497385 .. 7498406
1022 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00339170.1

Sequence Viewer

Length: 651 bp
ATGCACACTGTTAGTTGGTCCATGCATTTTCTTTCTGAGTATCAACGCTGCCATCCTGTGAAGAATTCAAGAAGAGGAAATAGACCCAGGACTACTAAATGGGTGGTTCCCCCCAGAGGAAGACTCAAGATAAATGTTGATGGGGTCTTTCACAGCATTGATGGGATTGGGGGAGTGGGAGTAGTGGCTCGTGATAACACTGGTCGCTTTCATGGAGCATTGAAACTGTTCATCGGTTCTCTCTCTCTTGCGCACGACCGAGCCCGTAAACAGGGCAATCTTCACCAAGCTCCTCCTTCCTCCACCGGCCATCAATCGACGCCGGACAACCTCCGGTGGCTTCGTCTCGGCCTTGCGAAGCTACCCGTGGTGGTCTTGGGTCACGGCACACCGGAAGCGGTGGAGAAGAGACCGGGTTCGTCCAACCCCGATTTGGTTCCAAGCATGGTAGCTCGAGCTACCGATCACGAAACCTTCCCAAACTCCATCCACGGGTTCGCTTCAACCATCCGAAACTCCCGTAAGTACCCTTGCACGGCGGCGCTGTCTCGGAGGCGGCCGGAGCTCAACCCCGATCGGATCAAAACGGAGCAAAGGATCCAAATATCTCGAGCTACAGGACGTTGTTTTGAGTGTTTCTTGGATTGGTGA
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_3 zf-RVT

Protein Analysis

216

Amino Acids

24.15

Weight (kDa)

10.98

Isoelectric Point (pI)

48.73

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: OG0000333)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G11910 AT3G11910 AT3G11910 AT3G11910 AT5G06600 AT5G06600 AT5G06600
fragaria_vesca FvH4_3g26930 FvH4_3g39132 FvH4_6g21220 FvH4_6g21220 FvH4_6g21220 FvH4_6g21220 FvH4_6g21220 FvH4_6g21220
malus_domestica MD02G1261100.v1.1 MD03G1161100.v1.1 MD07G1059900.v1.1 MD11G1177100.v1.1 MD12G1047900.v1.1 MD12G1048000.v1.1 MD12G1048400.v1.1 MD12G1048500.v1.1 MD12G1048700.v1.1 MD12G1048800.v1.1 MD12G1056200.v1.1 MD14G1046300.v1.1 MD14G1046500.v1.1 MD15G1166900.v1.1
prunus_persica Prupe.2G066200_v2.0.a1 Prupe.2G066200_v2.0.a1 Prupe.6G149500_v2.0.a1 Prupe.6G149500_v2.0.a1 Prupe.6G149500_v2.0.a1 Prupe.6G149500_v2.0.a1 Prupe.7G087600_v2.0.a1 Prupe.7G087600_v2.0.a1 Prupe.7G087600_v2.0.a1 Prupe.7G087600_v2.0.a1 Prupe.7G087600_v2.0.a1
pyrus_communis pycom02g22320 pycom03g11340 pycom07g04580 pycom11g14290 pycom11g15110 pycom12g04110 pycom12g04140 pycom12g04160 pycom12g04210 pycom12g04220 pycom12g04230 pycom12g04290 pycom12g04320 pycom12g04330 pycom12g04350 pycom12g04360 pycom14g03880 pycom14g03900 pycom16g18750
rosa_chinensis RchiOBHm_Chr1g0324111 RchiOBHm_Chr1g0324241 RchiOBHm_Chr3g0477691 RchiOBHm_Chr5g0049371 RchiOBHm_Chr5g0070531
rosa_laevigata RLG00000008612 RLG00000023698 RLG00000034613 RLG00000036139
rosa_multiflora Rmu_co8271779.1_g000001 Rmu_sc0006187.1_g000014
rosa_roxburghii Rroxscaffold_1G00010670 Rroxscaffold_1G00030450 Rroxscaffold_1G00031950 Rroxscaffold_1G00031970 Rroxscaffold_1G00032320 Rroxscaffold_1G00055490 Rroxscaffold_2G00083610 Rroxscaffold_2G00084480 Rroxscaffold_2G00115610 Rroxscaffold_3G00261320 Rroxscaffold_4G00312220 Rroxscaffold_4G00325820 Rroxscaffold_5G00339170 Rroxscaffold_5G00364030 Rroxscaffold_6G00403750
rosa_rugosa Rorug03G0162700 Rorug03G0162800 Rorug03G0162900 Rorug05G0247700 Rorug05G0406600 Rorug05G0406800
rosa_samantha Rh1AG060300 Rh3AG213000 Rh3BG246600 Rh3CG240400 Rh3DG239700 Rh5AG324400 Rh5AG462100 Rh5BG335500 Rh5BG480200 Rh5BG480300 Rh5CG360200 Rh5CG504500 Rh5CG504600 Rh5DG347800 Rh5DG492200 Rh5DG492300
rosa_wichuraiana Rw3G019270 Rw3G026910 Rw5G030650 Rw5G032610 Rw5G043040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 252
AciI CCGC 3 cut(s) 398, 539, 556
AclWI GGATC 3 cut(s) 587, 592, 605
AcoI YGGCCR 2 cut(s) 307, 557
AcsI RAATTY 1 cut(s) 64
AcyI GRCGYC 1 cut(s) 320
AfaI GTAC 1 cut(s) 527
AfiI CCNNNNNNNGG 5 cut(s) 116, 271, 433, 492, 535
AgsI TTSAA 3 cut(s) 69, 223, 504
AjnI CCWGG 1 cut(s) 86
AluBI AGCT 6 cut(s) 290, 361, 452, 458, 565, 614
AluI AGCT 6 cut(s) 290, 361, 452, 458, 565, 614
Alw21I GWGCWC 1 cut(s) 567
Alw26I GTCTC 3 cut(s) 350, 403, 552
AlwI GGATC 3 cut(s) 587, 592, 605
Ama87I CYCGRG 2 cut(s) 453, 609
AoxI GGCC 3 cut(s) 307, 349, 557
ApeKI GCWGC 1 cut(s) 48
ApoI RAATTY 1 cut(s) 64
Asp700I GAANNNNTTC 1 cut(s) 227
AspLEI GCGC 2 cut(s) 253, 544
AspS9I GGNCC 1 cut(s) 18
AsuC2I CCSGG 1 cut(s) 414
AsuHPI GGTGA 1 cut(s) 275
AvaI CYCGRG 2 cut(s) 453, 609
AvaII GGWCC 1 cut(s) 18
BamHI GGATCC 1 cut(s) 597
BanII GRGCYC 2 cut(s) 265, 567
BauI CACGAG 1 cut(s) 189
BbsI GAAGAC 1 cut(s) 127
Bbv12I GWGCWC 1 cut(s) 567
BbvI GCAGC 1 cut(s) 35
BccI CCATC 6 cut(s) 60, 134, 155, 318, 494, 515
BceAI ACGGC 2 cut(s) 400, 552
BciT130I CCWGG 1 cut(s) 88
BcnI CCSGG 1 cut(s) 414
BcoDI GTCTC 3 cut(s) 350, 403, 552
BfmI CTRYAG 1 cut(s) 615
BfoI RGCGCY 1 cut(s) 545
BisI GCNGC 3 cut(s) 49, 540, 557
BlsI GCNGC 3 cut(s) 50, 541, 558
Bme1390I CCNGG 2 cut(s) 88, 414
Bme18I GGWCC 1 cut(s) 18
BmeT110I CYCGRG 2 cut(s) 453, 609
BmgT120I GGNCC 1 cut(s) 18
BmiI GGNNCC 3 cut(s) 108, 438, 599
BmrFI CCNGG 2 cut(s) 88, 414
BpiI GAAGAC 1 cut(s) 127
BplI GAGNNNNNCTC 2 cut(s) 108, 140
BpuEI CTTGAG 1 cut(s) 110
BpuMI CCSGG 1 cut(s) 414
BsaHI GRCGYC 1 cut(s) 320
BsaI GGTCTC 1 cut(s) 403
BsaJI CCNNGG 3 cut(s) 86, 366, 490
BsaWI WCCGGW 2 cut(s) 333, 391
BsaXI ACNNNNNCTCC 2 cut(s) 165, 195
Bsc4I CCNNNNNNNGG 5 cut(s) 116, 271, 433, 492, 535
Bse118I RCCGGY 1 cut(s) 305
Bse1I ACTGG 1 cut(s) 205
BseBI CCWGG 1 cut(s) 88
BseDI CCNNGG 3 cut(s) 86, 366, 490
BseGI GGATG 3 cut(s) 52, 486, 507
BseLI CCNNNNNNNGG 5 cut(s) 116, 271, 433, 492, 535
BseMII CTCAG 1 cut(s) 27
BseNI ACTGG 1 cut(s) 205
BseRI GAGGAG 1 cut(s) 282
BseX3I CGGCCG 1 cut(s) 557
BseXI GCAGC 1 cut(s) 35
Bsh1285I CGRYCG 3 cut(s) 259, 560, 577
BshFI GGCC 3 cut(s) 309, 351, 559
BsiEI CGRYCG 3 cut(s) 259, 560, 577
BsiHKAI GWGCWC 1 cut(s) 567
BsiHKCI CYCGRG 2 cut(s) 453, 609
BsiSI CCGG 6 cut(s) 306, 323, 334, 392, 413, 560
BslI CCNNNNNNNGG 5 cut(s) 116, 271, 433, 492, 535
BsmAI GTCTC 3 cut(s) 350, 403, 552
BsmBI CGTCTC 1 cut(s) 350
BsnI GGCC 3 cut(s) 309, 351, 559
Bso31I GGTCTC 1 cut(s) 403
BsoBI CYCGRG 2 cut(s) 453, 609
Bsp1286I GDGCHC 2 cut(s) 265, 567
Bsp143I GATC 4 cut(s) 463, 574, 579, 597
BspACI CCGC 3 cut(s) 398, 539, 556
BspANI GGCC 3 cut(s) 309, 351, 559
BspCNI CTCAG 1 cut(s) 28
BspLI GGNNCC 3 cut(s) 108, 438, 599
BspPI GGATC 3 cut(s) 587, 592, 605
BspTNI GGTCTC 1 cut(s) 403
BsrFI RCCGGY 1 cut(s) 305
BsrI ACTGG 1 cut(s) 205
BssAI RCCGGY 1 cut(s) 305
BssECI CCNNGG 3 cut(s) 86, 366, 490
BssMI GATC 4 cut(s) 463, 574, 579, 597
BssNI GRCGYC 1 cut(s) 320
BssSI CACGAG 1 cut(s) 189
Bst2BI CACGAG 1 cut(s) 189
Bst2UI CCWGG 1 cut(s) 88
Bst4CI ACNGT 2 cut(s) 10, 228
Bst6I CTCTTC 2 cut(s) 67, 401
BstACI GRCGYC 1 cut(s) 320
BstDEI CTNAG 1 cut(s) 36
BstDSI CCRYGG 2 cut(s) 366, 490
BstF5I GGATG 3 cut(s) 52, 486, 507
BstH2I RGCGCY 1 cut(s) 545
BstHHI GCGC 2 cut(s) 253, 544
BstKTI GATC 4 cut(s) 466, 577, 582, 600
BstMAI GTCTC 3 cut(s) 350, 403, 552
BstMBI GATC 4 cut(s) 463, 574, 579, 597
BstMCI CGRYCG 3 cut(s) 259, 560, 577
BstMWI GCNNNNNNNGC 1 cut(s) 562
BstNI CCWGG 1 cut(s) 88
BstSCI CCNGG 2 cut(s) 86, 412
BstSFI CTRYAG 1 cut(s) 615
BstV1I GCAGC 1 cut(s) 35
BstV2I GAAGAC 1 cut(s) 127
BstX2I RGATCY 1 cut(s) 597
BstYI RGATCY 1 cut(s) 597
BstZI CGGCCG 1 cut(s) 557
BsuRI GGCC 3 cut(s) 309, 351, 559
BtgI CCRYGG 2 cut(s) 366, 490
BtsCI GGATG 3 cut(s) 52, 486, 507
BtsIMutI CAGTG 2 cut(s) 6, 198
CfoI GCGC 2 cut(s) 253, 544
Cfr10I RCCGGY 1 cut(s) 305
Cfr13I GGNCC 1 cut(s) 18
CseI GACGC 1 cut(s) 328
Csp6I GTAC 1 cut(s) 526
CviAII CATG 3 cut(s) 22, 212, 445
CviQI GTAC 1 cut(s) 526
DdeI CTNAG 1 cut(s) 36
DpnI GATC 4 cut(s) 465, 576, 581, 599
DpnII GATC 4 cut(s) 463, 574, 579, 597
EaeI YGGCCR 2 cut(s) 307, 557
EagI CGGCCG 1 cut(s) 557
Eam1104I CTCTTC 2 cut(s) 67, 401
EarI CTCTTC 2 cut(s) 67, 401
Ecl136II GAGCTC 1 cut(s) 565
EclXI CGGCCG 1 cut(s) 557
Eco24I GRGCYC 2 cut(s) 265, 567
Eco31I GGTCTC 1 cut(s) 403
Eco47I GGWCC 1 cut(s) 18
Eco52I CGGCCG 1 cut(s) 557
Eco53kI GAGCTC 1 cut(s) 565
Eco88I CYCGRG 2 cut(s) 453, 609
EcoICRI GAGCTC 1 cut(s) 565
EcoRI GAATTC 1 cut(s) 64
EcoRII CCWGG 1 cut(s) 86
EcoT22I ATGCAT 1 cut(s) 27
EcoT38I GRGCYC 2 cut(s) 265, 567
Esp3I CGTCTC 1 cut(s) 350
FaeI CATG 3 cut(s) 25, 215, 448
FaiI YATR 3 cut(s) 23, 213, 446
FatI CATG 3 cut(s) 21, 211, 444
Fnu4HI GCNGC 3 cut(s) 49, 540, 557
FokI GGATG 3 cut(s) 39, 473, 494
FriOI GRGCYC 2 cut(s) 265, 567
Fsp4HI GCNGC 3 cut(s) 49, 540, 557
FspI TGCGCA 1 cut(s) 252
GlaI GCGC 2 cut(s) 252, 543
GluI GCNGC 3 cut(s) 49, 540, 557
HaeII RGCGCY 1 cut(s) 545
HaeIII GGCC 3 cut(s) 309, 351, 559
HapII CCGG 6 cut(s) 306, 323, 334, 392, 413, 560
HgaI GACGC 1 cut(s) 328
HhaI GCGC 2 cut(s) 253, 544
Hin1I GRCGYC 1 cut(s) 320
Hin1II CATG 3 cut(s) 25, 215, 448
Hin6I GCGC 2 cut(s) 251, 542
HinP1I GCGC 2 cut(s) 251, 542
HinfI GANTC 1 cut(s) 123
HpaII CCGG 6 cut(s) 306, 323, 334, 392, 413, 560
HphI GGTGA 1 cut(s) 275
Hpy166II GTNNAC 1 cut(s) 269
Hpy188I TCNGA 4 cut(s) 37, 512, 552, 579
Hpy188III TCNNGA 5 cut(s) 69, 127, 191, 467, 609
Hpy8I GTNNAC 1 cut(s) 269
Hpy99I CGWCG 1 cut(s) 322
HpyAV CCTTC 2 cut(s) 306, 484
HpyCH4III ACNGT 2 cut(s) 10, 228
HpyCH4IV ACGT 1 cut(s) 622
HpyCH4V TGCA 3 cut(s) 4, 25, 534
HpyF10VI GCNNNNNNNGC 1 cut(s) 562
HpyF3I CTNAG 1 cut(s) 36
HpySE526I ACGT 1 cut(s) 622
Hsp92I GRCGYC 1 cut(s) 320
Hsp92II CATG 3 cut(s) 25, 215, 448
HspAI GCGC 2 cut(s) 251, 542
Kzo9I GATC 4 cut(s) 463, 574, 579, 597
LmnI GCTCC 4 cut(s) 215, 295, 562, 589
Lsp1109I GCAGC 1 cut(s) 35
MaeII ACGT 1 cut(s) 622
MaeIII GTNAC 1 cut(s) 380
MalI GATC 4 cut(s) 465, 576, 581, 599
MboI GATC 4 cut(s) 463, 574, 579, 597
MboII GAAGA 5 cut(s) 73, 84, 132, 272, 418
MflI RGATCY 1 cut(s) 597
MhlI GDGCHC 2 cut(s) 265, 567
MluCI AATT 1 cut(s) 64
MlyI GAGTC 1 cut(s) 117
MmeI TCCRAC 1 cut(s) 447
MnlI CCTC 6 cut(s) 68, 110, 303, 310, 341, 546
Mph1103I ATGCAT 1 cut(s) 27
MroXI GAANNNNTTC 1 cut(s) 227
MspI CCGG 6 cut(s) 306, 323, 334, 392, 413, 560
MspR9I CCNGG 2 cut(s) 88, 414
MvaI CCWGG 1 cut(s) 88
MwoI GCNNNNNNNGC 1 cut(s) 562
NciI CCSGG 1 cut(s) 414
NdeII GATC 4 cut(s) 463, 574, 579, 597
NlaIII CATG 3 cut(s) 25, 215, 448
NlaIV GGNNCC 3 cut(s) 108, 438, 599
NmeAIII GCCGAG 1 cut(s) 327
NmuCI GTSAC 1 cut(s) 380
NsbI TGCGCA 1 cut(s) 252
NsiI ATGCAT 1 cut(s) 27
PaeR7I CTCGAG 2 cut(s) 453, 609
PdmI GAANNNNTTC 1 cut(s) 227
PkrI GCNGC 3 cut(s) 50, 541, 558
Ple19I CGATCG 1 cut(s) 577
PleI GAGTC 1 cut(s) 117
PpsI GAGTC 1 cut(s) 117
Psp124BI GAGCTC 1 cut(s) 567
Psp6I CCWGG 1 cut(s) 86
PspGI CCWGG 1 cut(s) 86
PspN4I GGNNCC 3 cut(s) 108, 438, 599
PspPI GGNCC 1 cut(s) 18
PspXI VCTCGAGB 1 cut(s) 453
PsuI RGATCY 1 cut(s) 597
PvuI CGATCG 1 cut(s) 577
RsaI GTAC 1 cut(s) 527
RsaNI GTAC 1 cut(s) 526
SacI GAGCTC 1 cut(s) 567
SatI GCNGC 3 cut(s) 49, 540, 557
Sau3AI GATC 4 cut(s) 463, 574, 579, 597
Sau96I GGNCC 1 cut(s) 18
SchI GAGTC 1 cut(s) 117
ScrFI CCNGG 2 cut(s) 88, 414
SduI GDGCHC 2 cut(s) 265, 567
SetI ASST 9 cut(s) 292, 333, 363, 454, 460, 476, 567, 616, 625
SfcI CTRYAG 1 cut(s) 615
Sfr274I CTCGAG 2 cut(s) 453, 609
SinI GGWCC 1 cut(s) 18
SlaI CTCGAG 2 cut(s) 453, 609
SmlI CTYRAG 3 cut(s) 125, 453, 609
SmoI CTYRAG 3 cut(s) 125, 453, 609
Sse9I AATT 1 cut(s) 64
SsiI CCGC 3 cut(s) 398, 539, 556
SstI GAGCTC 1 cut(s) 567
StyD4I CCNGG 2 cut(s) 86, 412
TaaI ACNGT 2 cut(s) 10, 228
TaiI ACGT 1 cut(s) 625
TaqI TCGA 3 cut(s) 317, 454, 610
TaqII GACCGA 1 cut(s) 273
TasI AATT 1 cut(s) 64
TauI GCSGC 2 cut(s) 542, 559
TscAI CASTG 2 cut(s) 13, 205
TseFI GTSAC 1 cut(s) 380
TseI GCWGC 1 cut(s) 48
Tsp45I GTSAC 1 cut(s) 380
TspDTI ATGAA 2 cut(s) 200, 220
TspGWI ACGGA 1 cut(s) 602
TspRI CASTG 2 cut(s) 13, 205
VpaK11BI GGWCC 1 cut(s) 18
XapI RAATTY 1 cut(s) 64
XcmI CCANNNNNNNNNTGG 1 cut(s) 430
XhoI CTCGAG 2 cut(s) 453, 609
XmnI GAANNNNTTC 1 cut(s) 227
Zsp2I ATGCAT 1 cut(s) 27
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.