Rmu_sc0004038.1_g000011

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004038.1
OG0000194
Physical Location & Seq
Reverse (-)
38287 .. 40423
2137 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004038.1_g000011.1.cds

Sequence Viewer

Length: 1356 bp
atggataaatcttcagtttatgtgtgcagaactgagaaggttgtcttctcagccaatccaagagctattcgcctcttctggacagctcccacttcgaatggtgggcgatcaaaacgtgcggtattggattatgttcgtgactctatttctcctaaacttcaagggtggaaacaaaagatgttaactcaggcaggaaaagaagttttaaacaaatctgtggcgacggcaatcctggcgtaccctatgacctattttcgctttccaaaatccctctgtgatcagattacttcagatattgttcgcttttggtggagcaataattctgtaaaaggcatccattgggagagctggcagacgctcactcttcctaaatctagagggcgaatggttttccgtaagttggaacatttcaaccaagctcttttagcgaaacaaggatggcggattcttacctccccgtcagcgatatgggtgcatcttctcaaagaccgttatttcccctcttcttcattcttggaagctacaatcgggccttctccttcttggttgtgggctagtctccttcatggtcgtgagttgcttaaatcccaattgctttggagggttggtaatggtcttcaaatttcggtgtggcattcaaactggatcctgcggatgcggacctcgactctgactcaattgggagccttgtctctatttcaggctcaagctattcgggcagttactctaatcaactcatccatatctgataagcttgtttggccactgactaagtctgggagttatactgtcaagtcaggttataatgcagcccatttatcctcctctggaggagtggtgcctcaccttatagcctcatattccatattcggttgtttgggattgtttatggaaattagacaattgagcacattctcttgttgggtgcaaaaggcttggcgtatccatcatattggatatcgtcctcagcttcatcacctttccactttggatgattggtttcaacaccttaccttcccttcctcctcttcgaaggaccaaagaaaagaactactcactcatctcagtttcattttatggcatatatggaaacatcggtgtaactgtgtgttcacccattccagctcaaattctagtttggtagcttcgttgtcttacgatgtggccgtggagtatcttgctctagtttatctcatcctcagcttcctgacgaatccacacttcatttacgacctccccctaagccaaaatagtctcctccacctcttcatcacattaagattaactgtgcagcttactggtccaactcaatcgtcaggattgcttcagttgctaggaagtgtactagagatgtga
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
DUF4283 RVT_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

451

Amino Acids

51.38

Weight (kDa)

9.99

Isoelectric Point (pI)

38.34

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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Style Settings
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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)
AanI TTATAA 1 cut(s) 804
AccB1I GGYRCC 1 cut(s) 838
AciI CCGC 4 cut(s) 119, 442, 652, 658
AclWI GGATC 2 cut(s) 640, 653
AcoI YGGCCR 2 cut(s) 761, 1164
AcsI RAATTY 2 cut(s) 621, 1129
AcuI CTGAAG 2 cut(s) 273, 1310
AfaI GTAC 2 cut(s) 239, 1344
AfiI CCNNNNNNNGG 1 cut(s) 400
AgsI TTSAA 5 cut(s) 161, 412, 620, 639, 1004
AjnI CCWGG 1 cut(s) 231
Alw21I GWGCWC 1 cut(s) 911
Alw26I GTCTC 3 cut(s) 563, 696, 1259
AlwI GGATC 2 cut(s) 640, 653
AoxI GGCC 3 cut(s) 530, 761, 1164
ApeKI GCWGC 2 cut(s) 809, 1291
ApoI RAATTY 2 cut(s) 621, 1129
AspS9I GGNCC 4 cut(s) 530, 660, 1036, 1301
AsuHPI GGTGA 3 cut(s) 836, 968, 1105
AsuII TTCGAA 2 cut(s) 95, 1031
AvaII GGWCC 3 cut(s) 660, 1036, 1301
BalI TGGCCA 1 cut(s) 763
BamHI GGATCC 1 cut(s) 645
BanI GGYRCC 1 cut(s) 838
BbsI GAAGAC 2 cut(s) 37, 608
Bbv12I GWGCWC 1 cut(s) 911
BbvCI CCTCAGC 2 cut(s) 966, 1199
BbvI GCAGC 2 cut(s) 821, 1303
BccI CCATC 2 cut(s) 432, 954
BceAI ACGGC 2 cut(s) 240, 1151
BcgI CGANNNNNNTGC 2 cut(s) 454, 488
BciT130I CCWGG 1 cut(s) 233
BciVI GTATCC 1 cut(s) 953
BclI TGATCA 1 cut(s) 277
BcoDI GTCTC 3 cut(s) 563, 696, 1259
BfaI CTAG 6 cut(s) 375, 555, 1134, 1184, 1334, 1346
BfuI GTATCC 1 cut(s) 953
BisI GCNGC 2 cut(s) 810, 1292
BlsI GCNGC 2 cut(s) 811, 1293
Bme1390I CCNGG 1 cut(s) 233
Bme18I GGWCC 3 cut(s) 660, 1036, 1301
BmgT120I GGNCC 4 cut(s) 530, 660, 1036, 1301
BmiI GGNNCC 3 cut(s) 647, 685, 840
BmrFI CCNGG 1 cut(s) 233
BmsI GCATC 3 cut(s) 342, 484, 645
BpiI GAAGAC 2 cut(s) 37, 608
BpmI CTGGAG 1 cut(s) 849
Bpu10I CCTNAGC 3 cut(s) 966, 1199, 1241
Bpu14I TTCGAA 2 cut(s) 95, 1031
BpuEI CTTGAG 1 cut(s) 690
BsaJI CCNNGG 1 cut(s) 1167
BsaXI ACNNNNNCTCC 4 cut(s) 592, 622, 822, 852
Bsc4I CCNNNNNNNGG 1 cut(s) 400
Bse1I ACTGG 2 cut(s) 647, 1303
BseBI CCWGG 1 cut(s) 233
BseDI CCNNGG 1 cut(s) 1167
BseGI GGATG 6 cut(s) 333, 443, 660, 737, 997, 1194
BseLI CCNNNNNNNGG 1 cut(s) 400
BseMII CTCAG 6 cut(s) 24, 63, 200, 980, 1078, 1213
BseNI ACTGG 2 cut(s) 647, 1303
BseRI GAGGAG 4 cut(s) 814, 846, 1015, 1247
BseXI GCAGC 2 cut(s) 821, 1303
BsgI GTGCAG 2 cut(s) 46, 1310
BshFI GGCC 3 cut(s) 532, 763, 1166
BshNI GGYRCC 1 cut(s) 838
BsiHKAI GWGCWC 1 cut(s) 911
BslI CCNNNNNNNGG 1 cut(s) 400
BsmAI GTCTC 3 cut(s) 563, 696, 1259
BsmI GAATGC 1 cut(s) 634
BsnI GGCC 3 cut(s) 532, 763, 1166
Bsp119I TTCGAA 2 cut(s) 95, 1031
Bsp1286I GDGCHC 1 cut(s) 911
Bsp143I GATC 3 cut(s) 107, 277, 645
BspACI CCGC 4 cut(s) 119, 442, 652, 658
BspANI GGCC 3 cut(s) 532, 763, 1166
BspCNI CTCAG 6 cut(s) 25, 62, 199, 979, 1077, 1212
BspLI GGNNCC 3 cut(s) 647, 685, 840
BspPI GGATC 2 cut(s) 640, 653
BspT104I TTCGAA 2 cut(s) 95, 1031
BspT107I GGYRCC 1 cut(s) 838
BsrI ACTGG 2 cut(s) 647, 1303
BssECI CCNNGG 1 cut(s) 1167
BssMI GATC 3 cut(s) 107, 277, 645
Bst2UI CCWGG 1 cut(s) 233
Bst4CI ACNGT 4 cut(s) 491, 790, 1106, 1288
Bst6I CTCTTC 5 cut(s) 80, 369, 508, 1033, 1271
BstBI TTCGAA 2 cut(s) 95, 1031
BstC8I GCNNGC 1 cut(s) 350
BstDEI CTNAG 8 cut(s) 33, 49, 186, 771, 966, 1064, 1199, 1241
BstDSI CCRYGG 1 cut(s) 1167
BstF5I GGATG 6 cut(s) 333, 443, 660, 737, 997, 1194
BstKTI GATC 3 cut(s) 110, 280, 648
BstMAI GTCTC 3 cut(s) 563, 696, 1259
BstMBI GATC 3 cut(s) 107, 277, 645
BstMWI GCNNNNNNNGC 5 cut(s) 233, 425, 716, 760, 1330
BstNI CCWGG 1 cut(s) 233
BstSCI CCNGG 1 cut(s) 231
BstV1I GCAGC 2 cut(s) 821, 1303
BstV2I GAAGAC 2 cut(s) 37, 608
BstX2I RGATCY 1 cut(s) 645
BstXI CCANNNNNNTGG 1 cut(s) 953
BstYI RGATCY 1 cut(s) 645
BsuI GTATCC 1 cut(s) 953
BsuRI GGCC 3 cut(s) 532, 763, 1166
BtgI CCRYGG 1 cut(s) 1167
BtsCI GGATG 6 cut(s) 333, 443, 660, 737, 997, 1194
BtsIMutI CAGTG 1 cut(s) 764
Cac8I GCNNGC 1 cut(s) 350
Cfr13I GGNCC 4 cut(s) 530, 660, 1036, 1301
CseI GACGC 1 cut(s) 364
Csp6I GTAC 2 cut(s) 238, 1343
CviAII CATG 1 cut(s) 566
CviQI GTAC 2 cut(s) 238, 1343
DdeI CTNAG 8 cut(s) 33, 49, 186, 771, 966, 1064, 1199, 1241
DpnI GATC 3 cut(s) 109, 279, 647
DpnII GATC 3 cut(s) 107, 277, 645
DraI TTTAAA 1 cut(s) 207
EaeI YGGCCR 2 cut(s) 761, 1164
Eam1104I CTCTTC 5 cut(s) 80, 369, 508, 1033, 1271
EarI CTCTTC 5 cut(s) 80, 369, 508, 1033, 1271
EciI GGCGGA 1 cut(s) 457
Eco32I GATATC 1 cut(s) 959
Eco47I GGWCC 3 cut(s) 660, 1036, 1301
Eco57I CTGAAG 2 cut(s) 273, 1310
EcoRII CCWGG 1 cut(s) 231
EcoRV GATATC 1 cut(s) 959
FaeI CATG 1 cut(s) 569
FalI AAGNNNNNCTT 2 cut(s) 29, 61
FatI CATG 1 cut(s) 565
FbaI TGATCA 1 cut(s) 277
Fnu4HI GCNGC 2 cut(s) 810, 1292
FokI GGATG 6 cut(s) 320, 450, 667, 724, 1004, 1181
Fsp4HI GCNGC 2 cut(s) 810, 1292
FspBI CTAG 6 cut(s) 375, 555, 1134, 1184, 1334, 1346
GluI GCNGC 2 cut(s) 810, 1292
GsuI CTGGAG 1 cut(s) 849
HaeIII GGCC 3 cut(s) 532, 763, 1166
HgaI GACGC 1 cut(s) 364
Hin1II CATG 1 cut(s) 569
HincII GTYRAC 1 cut(s) 183
HindII GTYRAC 1 cut(s) 183
HindIII AAGCTT 1 cut(s) 752
HinfI GANTC 5 cut(s) 140, 445, 667, 673, 1213
HpaI GTTAAC 1 cut(s) 183
HphI GGTGA 3 cut(s) 836, 968, 1105
Hpy166II GTNNAC 3 cut(s) 183, 1113, 1343
Hpy188I TCNGA 4 cut(s) 282, 292, 672, 748
Hpy188III TCNNGA 7 cut(s) 79, 137, 375, 572, 828, 1207, 1317
Hpy8I GTNNAC 3 cut(s) 183, 1113, 1343
Hpy99I CGWCG 1 cut(s) 226
HpyAV CCTTC 7 cut(s) 31, 543, 549, 572, 1024, 1027, 1029
HpyCH4III ACNGT 4 cut(s) 491, 790, 1106, 1288
HpyCH4IV ACGT 1 cut(s) 115
HpyCH4V TGCA 5 cut(s) 27, 475, 809, 928, 1291
HpyF10VI GCNNNNNNNGC 5 cut(s) 233, 425, 716, 760, 1330
HpyF3I CTNAG 8 cut(s) 33, 49, 186, 771, 966, 1064, 1199, 1241
HpySE526I ACGT 1 cut(s) 115
Hsp92II CATG 1 cut(s) 569
Ksp22I TGATCA 1 cut(s) 277
KspAI GTTAAC 1 cut(s) 183
Kzo9I GATC 3 cut(s) 107, 277, 645
LmnI GCTCC 3 cut(s) 91, 312, 683
Lsp1109I GCAGC 2 cut(s) 821, 1303
LweI GCATC 3 cut(s) 342, 484, 645
MaeI CTAG 6 cut(s) 375, 555, 1134, 1184, 1334, 1346
MaeII ACGT 1 cut(s) 115
MaeIII GTNAC 3 cut(s) 137, 721, 1100
MalI GATC 3 cut(s) 109, 279, 647
MboI GATC 3 cut(s) 107, 277, 645
MfeI CAATTG 3 cut(s) 590, 677, 902
MflI RGATCY 1 cut(s) 645
MhlI GDGCHC 1 cut(s) 911
MlsI TGGCCA 1 cut(s) 763
MluCI AATT 7 cut(s) 319, 590, 621, 677, 894, 902, 1129
MluNI TGGCCA 1 cut(s) 763
MlyI GAGTC 3 cut(s) 134, 661, 667
MmeI TCCRAC 2 cut(s) 381, 1328
Mox20I TGGCCA 1 cut(s) 763
MscI TGGCCA 1 cut(s) 763
MseI TTAA 5 cut(s) 182, 206, 582, 1277, 1283
MslI CAYNNNNRTG 1 cut(s) 570
Msp20I TGGCCA 1 cut(s) 763
MspR9I CCNGG 1 cut(s) 233
MunI CAATTG 3 cut(s) 590, 677, 902
Mva1269I GAATGC 1 cut(s) 634
MvaI CCWGG 1 cut(s) 233
MwoI GCNNNNNNNGC 5 cut(s) 233, 425, 716, 760, 1330
NdeII GATC 3 cut(s) 107, 277, 645
NlaIII CATG 1 cut(s) 569
NlaIV GGNNCC 3 cut(s) 647, 685, 840
NmuCI GTSAC 1 cut(s) 137
NspV TTCGAA 2 cut(s) 95, 1031
PcsI WCGNNNNNNNCGW 1 cut(s) 1164
PctI GAATGC 1 cut(s) 634
PfeI GAWTC 2 cut(s) 445, 1213
PflFI GACNNNGTC 1 cut(s) 772
PkrI GCNGC 2 cut(s) 811, 1293
PleI GAGTC 3 cut(s) 134, 661, 667
PpsI GAGTC 3 cut(s) 134, 661, 667
PsiI TTATAA 1 cut(s) 804
Psp6I CCWGG 1 cut(s) 231
PspGI CCWGG 1 cut(s) 231
PspN4I GGNNCC 3 cut(s) 647, 685, 840
PspPI GGNCC 4 cut(s) 530, 660, 1036, 1301
PsuI RGATCY 1 cut(s) 645
PsyI GACNNNGTC 1 cut(s) 772
RsaI GTAC 2 cut(s) 239, 1344
RsaNI GTAC 2 cut(s) 238, 1343
RseI CAYNNNNRTG 1 cut(s) 570
SaqAI TTAA 5 cut(s) 182, 206, 582, 1277, 1283
SatI GCNGC 2 cut(s) 810, 1292
Sau3AI GATC 3 cut(s) 107, 277, 645
Sau96I GGNCC 4 cut(s) 530, 660, 1036, 1301
SchI GAGTC 3 cut(s) 134, 661, 667
ScrFI CCNGG 1 cut(s) 233
SduI GDGCHC 1 cut(s) 911
SfaNI GCATC 3 cut(s) 342, 484, 645
SfuI TTCGAA 2 cut(s) 95, 1031
SinI GGWCC 3 cut(s) 660, 1036, 1301
SmiMI CAYNNNNRTG 1 cut(s) 570
SmlI CTYRAG 1 cut(s) 705
SmoI CTYRAG 1 cut(s) 705
Sse9I AATT 7 cut(s) 319, 590, 621, 677, 894, 902, 1129
SsiI CCGC 4 cut(s) 119, 442, 652, 658
SspMI CTAG 6 cut(s) 375, 555, 1134, 1184, 1334, 1346
StyD4I CCNGG 1 cut(s) 231
TaaI ACNGT 4 cut(s) 491, 790, 1106, 1288
TaiI ACGT 1 cut(s) 118
TaqI TCGA 3 cut(s) 95, 665, 1031
TasI AATT 7 cut(s) 319, 590, 621, 677, 894, 902, 1129
TatI WGTACW 1 cut(s) 1342
TfiI GAWTC 2 cut(s) 445, 1213
Tru1I TTAA 5 cut(s) 182, 206, 582, 1277, 1283
Tru9I TTAA 5 cut(s) 182, 206, 582, 1277, 1283
TscAI CASTG 1 cut(s) 771
TseFI GTSAC 1 cut(s) 137
TseI GCWGC 2 cut(s) 809, 1291
Tsp45I GTSAC 1 cut(s) 137
TspDTI ATGAA 6 cut(s) 498, 554, 962, 1060, 1213, 1258
TspGWI ACGGA 1 cut(s) 383
TspRI CASTG 1 cut(s) 771
Tth111I GACNNNGTC 1 cut(s) 772
VpaK11BI GGWCC 3 cut(s) 660, 1036, 1301
XapI RAATTY 2 cut(s) 621, 1129
XbaI TCTAGA 1 cut(s) 374
XspI CTAG 6 cut(s) 375, 555, 1134, 1184, 1334, 1346
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.