Rmu_sc0004967.1_g000005

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004967.1
OG0000172
Physical Location & Seq
Reverse (-)
15152 .. 19068
3917 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004967.1_g000005.1.cds

Sequence Viewer

Length: 687 bp
atggctgcagcgatcgcatccatgactgccatacttgcgactaaactgtcgctcaaggagggagaagaaccaattgatttggggaatctccgagttcaggggaaggagttcatggctcggaatttctacttggtaggaaggcttaatacttgtaggaagttgcagctggaatcattccggagtgctgtaagatctatgtggaggttgactgggaccgtgaaggtacaaccaagggcgccgcacacggtggatctcgtcgctagagaacaccatagggatgaccggacggaagaggcgaaccagctgaccaagtttcacggccagagatcgccgcagttcgccggaaaagtcgggtcgggtcatcacacgcttgatggcatacctccgggtattttgactgaacctaccatccggttggttagtgggacaattggcgaggtgctggaggtggatcgtccgactctgtgtaggggcgatgctcgggtcaggcttgttctctctatccatgatccggtgcgtcttgaccctagggttagggtttctccgtctgacgtcctaacccttagattcaagtatgaaaggctccttgggcgttgccacgcctgtgctatgttgaatcatggtggccagcgatgccctagggtggatgagttggaagctgatgctgggatggaacatggatcgtag
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

228

Amino Acids

25.35

Weight (kDa)

9.29

Isoelectric Point (pI)

29.36

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: OG0000172)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G59650 AT3G59650
fragaria_vesca FvH4_1g19981 FvH4_1g22221 FvH4_2g13530 FvH4_2g13791 FvH4_2g14332 FvH4_2g14911 FvH4_2g16332 FvH4_3g10980 FvH4_3g11141 FvH4_3g14171 FvH4_3g26311 FvH4_3g28254 FvH4_3g29741 FvH4_4g05261 FvH4_4g12002 FvH4_4g13371 FvH4_4g15541 FvH4_4g18531 FvH4_5g02661 FvH4_5g02662 FvH4_5g16791 FvH4_5g29700 FvH4_5g35881 FvH4_5g37061 FvH4_6g01571 FvH4_6g12761 FvH4_6g14961 FvH4_6g20381 FvH4_6g22001 FvH4_6g23673 FvH4_6g23960 FvH4_6g28051 FvH4_6g31094 FvH4_6g36541 FvH4_7g00911 FvH4_7g06200 FvH4_7g06200 FvH4_7g09551
malus_domestica MD08G1230600.v1.1
prunus_persica Prupe.1G206900_v2.0.a1 Prupe.1G206900_v2.0.a1 Prupe.1G206900_v2.0.a1
pyrus_communis pycom08g20050 pycom15g37590
rosa_chinensis RchiOBHm_Chr1g0333831 RchiOBHm_Chr1g0344871 RchiOBHm_Chr3g0473241 RchiOBHm_Chr5g0018871 RchiOBHm_Chr6g0265791
rosa_laevigata RLG00000005720 RLG00000012718 RLG00000027174 RLG00000029225 RLG00000029527
rosa_multiflora Rmu_co8002714.1_g000001 Rmu_co8072270.1_g000001 Rmu_co8095594.1_g000001 Rmu_co8308871.1_g000001 Rmu_co8398699.1_g000001 Rmu_co8404287.1_g000001 Rmu_sc0000035.1_g000010 Rmu_sc0000133.1_g000007 Rmu_sc0000253.1_g000023 Rmu_sc0000308.1_g000010 Rmu_sc0000309.1_g000030 Rmu_sc0000515.1_g000015 Rmu_sc0000865.1_g000001 Rmu_sc0000889.1_g000005 Rmu_sc0001262.1_g000011 Rmu_sc0001518.1_g000013 Rmu_sc0001533.1_g000006 Rmu_sc0001547.1_g000007 Rmu_sc0001826.1_g000013 Rmu_sc0002060.1_g000017 Rmu_sc0002129.1_g000005 Rmu_sc0002449.1_g000016 Rmu_sc0002460.1_g000036 Rmu_sc0002475.1_g000014 Rmu_sc0002553.1_g000017 Rmu_sc0002759.1_g000033 Rmu_sc0002918.1_g000009 Rmu_sc0002955.1_g000020 Rmu_sc0003094.1_g000010 Rmu_sc0003669.1_g000009 Rmu_sc0004109.1_g000008 Rmu_sc0004350.1_g000007 Rmu_sc0004542.1_g000018 Rmu_sc0004967.1_g000005 Rmu_sc0005026.1_g000005 Rmu_sc0005369.1_g000013 Rmu_sc0005400.1_g000025 Rmu_sc0005420.1_g000006 Rmu_sc0005467.1_g000013 Rmu_sc0005497.1_g000003 Rmu_sc0005607.1_g000023 Rmu_sc0005949.1_g000008 Rmu_sc0005970.1_g000002 Rmu_sc0006452.1_g000001 Rmu_sc0006720.1_g000008 Rmu_sc0006867.1_g000004 Rmu_sc0007177.1_g000006 Rmu_sc0007199.1_g000011 Rmu_sc0007783.1_g000004 Rmu_sc0007885.1_g000006 Rmu_sc0008619.1_g000001 Rmu_sc0008709.1_g000004 Rmu_sc0008709.1_g000005 Rmu_sc0009185.1_g000029 Rmu_sc0010244.1_g000010 Rmu_sc0011610.1_g000005 Rmu_sc0011680.1_g000013 Rmu_sc0012075.1_g000003 Rmu_sc0012278.1_g000001 Rmu_sc0012628.1_g000001 Rmu_sc0018485.1_g000006 Rmu_sc0019960.1_g000001 Rmu_sc0020177.1_g000002 Rmu_sc0020656.1_g000001 Rmu_sc0021333.1_g000003 Rmu_sc0023170.1_g000002 Rmu_sc0023989.1_g000005 Rmu_sc0025259.1_g000001 Rmu_sc0025350.1_g000013 Rmu_sc0029678.1_g000002 Rmu_sc0035939.1_g000001 Rmu_sc0039260.1_g000001 Rmu_sc0039886.1_g000001 Rmu_ssc0000323.1_g000030 Rmu_ssc0000333.1_g000005 Rmu_ssc0000471.1_g000017 Rmu_ssc0000480.1_g000025
rosa_roxburghii Rroxscaffold_1G00006060 Rroxscaffold_1G00048570 Rroxscaffold_1G00057650 Rroxscaffold_1G00072720 Rroxscaffold_4G00281190 Rroxscaffold_4G00317160 Rroxscaffold_6G00411570
rosa_rugosa Rorug01G0004800 Rorug01G0112100 Rorug01G0206100 Rorug02G0324000 Rorug05G0305600 Rorug05G0326800 Rorug06G0018900 Rorug06G0167000 Rorug07G0031200 Rorug07G0071900
rosa_samantha Rh1AG134700 Rh1BG103000 Rh1CG007300 Rh1CG128100 Rh1DG140100 Rh2DG579500 Rh3DG199000 Rh4BG252500 Rh5AG374900 Rh5BG146800 Rh5BG151500 Rh5DG399700
rosa_wichuraiana Rw0G001820 Rw1G011230 Rw1G011240 Rw1G027290 Rw2G011670 Rw2G039270 Rw6G018440 Rw6G023120 Rw7G025180

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 46
AatII GACGTC 1 cut(s) 555
AccB1I GGYRCC 1 cut(s) 235
AccIII TCCGGA 1 cut(s) 177
AciI CCGC 2 cut(s) 239, 332
AclWI GGATC 3 cut(s) 258, 459, 503
AcoI YGGCCR 2 cut(s) 319, 625
AcsI RAATTY 1 cut(s) 121
AcyI GRCGYC 2 cut(s) 236, 552
AdeI CACNNNGTG 1 cut(s) 247
AfaI GTAC 1 cut(s) 225
AfiI CCNNNNNNNGG 3 cut(s) 97, 511, 643
AgsI TTSAA 2 cut(s) 571, 616
AjuI GAANNNNNNNTTGG 4 cut(s) 113, 145, 570, 602
AleI CACNNNNGTG 1 cut(s) 603
AloI GAACNNNNNNTCC 2 cut(s) 393, 425
AluBI AGCT 3 cut(s) 166, 304, 659
AluI AGCT 3 cut(s) 166, 304, 659
AlwI GGATC 3 cut(s) 258, 459, 503
Ama87I CYCGRG 1 cut(s) 480
Aor13HI TCCGGA 1 cut(s) 177
AoxI GGCC 2 cut(s) 319, 625
ApeKI GCWGC 3 cut(s) 5, 8, 163
ApoI RAATTY 1 cut(s) 121
AsiSI GCGATCGC 1 cut(s) 15
Asp700I GAANNNNTTC 1 cut(s) 107
AspA2I CCTAGG 2 cut(s) 527, 638
AspLEI GCGC 1 cut(s) 238
AspS9I GGNCC 1 cut(s) 213
AsuC2I CCSGG 1 cut(s) 387
AvaI CYCGRG 1 cut(s) 480
AvaII GGWCC 1 cut(s) 213
AvrII CCTAGG 2 cut(s) 527, 638
BalI TGGCCA 1 cut(s) 627
BanI GGYRCC 1 cut(s) 235
BarI GAAGNNNNNNTAC 2 cut(s) 130, 162
BbvI GCAGC 2 cut(s) 20, 175
BccI CCATC 3 cut(s) 368, 416, 664
BceAI ACGGC 1 cut(s) 334
BcnI CCSGG 1 cut(s) 387
BfaI CTAG 3 cut(s) 261, 528, 639
BfmI CTRYAG 1 cut(s) 6
BfoI RGCGCY 1 cut(s) 239
BglII AGATCT 1 cut(s) 191
BisI GCNGC 5 cut(s) 6, 9, 164, 239, 332
BlnI CCTAGG 2 cut(s) 527, 638
BlsI GCNGC 5 cut(s) 7, 10, 165, 240, 333
Bme1390I CCNGG 1 cut(s) 387
Bme18I GGWCC 1 cut(s) 213
BmeT110I CYCGRG 1 cut(s) 480
BmgT120I GGNCC 1 cut(s) 213
BmiI GGNNCC 3 cut(s) 214, 237, 584
BmrFI CCNGG 1 cut(s) 387
BmrI ACTGGG 1 cut(s) 219
BmsI GCATC 4 cut(s) 26, 466, 623, 652
BmuI ACTGGG 1 cut(s) 219
BpmI CTGGAG 1 cut(s) 464
BpuEI CTTGAG 1 cut(s) 38
BpuMI CCSGG 1 cut(s) 387
BsaHI GRCGYC 2 cut(s) 236, 552
BsaJI CCNNGG 4 cut(s) 230, 527, 586, 638
BsaWI WCCGGW 4 cut(s) 177, 282, 411, 511
Bsc4I CCNNNNNNNGG 3 cut(s) 97, 511, 643
Bse1I ACTGG 1 cut(s) 214
BseAI TCCGGA 1 cut(s) 177
BseDI CCNNGG 4 cut(s) 230, 527, 586, 638
BseGI GGATG 5 cut(s) 17, 283, 408, 652, 675
BseLI CCNNNNNNNGG 3 cut(s) 97, 511, 643
BseNI ACTGG 1 cut(s) 214
BseXI GCAGC 2 cut(s) 20, 175
BseYI CCCAGC 1 cut(s) 665
Bsh1285I CGRYCG 1 cut(s) 15
BshFI GGCC 2 cut(s) 321, 627
BshNI GGYRCC 1 cut(s) 235
BsiEI CGRYCG 1 cut(s) 15
BsiHKCI CYCGRG 1 cut(s) 480
BsiSI CCGG 6 cut(s) 178, 283, 342, 386, 412, 512
BslFI GGGAC 2 cut(s) 226, 439
BslI CCNNNNNNNGG 3 cut(s) 97, 511, 643
BsmFI GGGAC 2 cut(s) 226, 439
BsnI GGCC 2 cut(s) 321, 627
BsoBI CYCGRG 1 cut(s) 480
Bsp13I TCCGGA 1 cut(s) 177
Bsp143I GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
BspACI CCGC 2 cut(s) 239, 332
BspANI GGCC 2 cut(s) 321, 627
BspEI TCCGGA 1 cut(s) 177
BspLI GGNNCC 3 cut(s) 214, 237, 584
BspMAI CTGCAG 1 cut(s) 10
BspPI GGATC 3 cut(s) 258, 459, 503
BspT107I GGYRCC 1 cut(s) 235
BsrI ACTGG 1 cut(s) 214
BssECI CCNNGG 4 cut(s) 230, 527, 586, 638
BssMI GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
BssNI GRCGYC 2 cut(s) 236, 552
BssT1I CCWWGG 4 cut(s) 230, 527, 586, 638
Bst4CI ACNGT 3 cut(s) 48, 217, 247
Bst6I CTCTTC 1 cut(s) 285
BstACI GRCGYC 2 cut(s) 236, 552
BstC8I GCNNGC 1 cut(s) 629
BstDEI CTNAG 1 cut(s) 563
BstF5I GGATG 5 cut(s) 17, 283, 408, 652, 675
BstH2I RGCGCY 1 cut(s) 239
BstHHI GCGC 1 cut(s) 238
BstKTI GATC 7 cut(s) 15, 194, 253, 329, 454, 511, 683
BstMBI GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
BstMCI CGRYCG 1 cut(s) 15
BstMWI GCNNNNNNNGC 4 cut(s) 14, 35, 589, 633
BstSCI CCNGG 1 cut(s) 385
BstSFI CTRYAG 1 cut(s) 6
BstV1I GCAGC 2 cut(s) 20, 175
BstX2I RGATCY 2 cut(s) 191, 250
BstXI CCANNNNNNTGG 1 cut(s) 415
BstYI RGATCY 2 cut(s) 191, 250
BsuRI GGCC 2 cut(s) 321, 627
BtgZI GCGATG 2 cut(s) 489, 646
BtsCI GGATG 5 cut(s) 17, 283, 408, 652, 675
Cac8I GCNNGC 1 cut(s) 629
CfoI GCGC 1 cut(s) 238
Cfr13I GGNCC 1 cut(s) 213
CseI GACGC 1 cut(s) 506
Csp6I GTAC 1 cut(s) 224
CviAII CATG 5 cut(s) 22, 112, 506, 620, 677
CviQI GTAC 1 cut(s) 224
DdeI CTNAG 1 cut(s) 563
DinI GGCGCC 1 cut(s) 237
DpnI GATC 7 cut(s) 14, 193, 252, 328, 453, 510, 682
DpnII GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
DraIII CACNNNGTG 1 cut(s) 247
DrdI GACNNNNNNGTC 1 cut(s) 46
DseDI GACNNNNNNGTC 1 cut(s) 46
EaeI YGGCCR 2 cut(s) 319, 625
Eam1104I CTCTTC 1 cut(s) 285
EarI CTCTTC 1 cut(s) 285
Eco130I CCWWGG 4 cut(s) 230, 527, 586, 638
Eco47I GGWCC 1 cut(s) 213
Eco88I CYCGRG 1 cut(s) 480
EcoT14I CCWWGG 4 cut(s) 230, 527, 586, 638
EgeI GGCGCC 1 cut(s) 237
EheI GGCGCC 1 cut(s) 237
ErhI CCWWGG 4 cut(s) 230, 527, 586, 638
FaeI CATG 5 cut(s) 25, 115, 509, 623, 680
FaqI GGGAC 2 cut(s) 226, 439
FatI CATG 5 cut(s) 21, 111, 505, 619, 676
Fnu4HI GCNGC 5 cut(s) 6, 9, 164, 239, 332
FokI GGATG 5 cut(s) 4, 290, 395, 659, 682
Fsp4HI GCNGC 5 cut(s) 6, 9, 164, 239, 332
FspBI CTAG 3 cut(s) 261, 528, 639
GlaI GCGC 1 cut(s) 237
GluI GCNGC 5 cut(s) 6, 9, 164, 239, 332
GsaI CCCAGC 1 cut(s) 669
GsuI CTGGAG 1 cut(s) 464
HaeII RGCGCY 1 cut(s) 239
HaeIII GGCC 2 cut(s) 321, 627
HapII CCGG 6 cut(s) 178, 283, 342, 386, 412, 512
HgaI GACGC 1 cut(s) 506
HhaI GCGC 1 cut(s) 238
Hin1I GRCGYC 2 cut(s) 236, 552
Hin1II CATG 5 cut(s) 25, 115, 509, 623, 680
Hin6I GCGC 1 cut(s) 236
HinP1I GCGC 1 cut(s) 236
HincII GTYRAC 1 cut(s) 207
HindII GTYRAC 1 cut(s) 207
HinfI GANTC 5 cut(s) 85, 170, 460, 567, 616
HpaII CCGG 6 cut(s) 178, 283, 342, 386, 412, 512
Hpy166II GTNNAC 1 cut(s) 207
Hpy188I TCNGA 4 cut(s) 92, 120, 459, 550
Hpy188III TCNNGA 2 cut(s) 178, 521
Hpy8I GTNNAC 1 cut(s) 207
Hpy99I CGWCG 1 cut(s) 260
HpyAV CCTTC 3 cut(s) 97, 132, 214
HpyCH4III ACNGT 3 cut(s) 48, 217, 247
HpyCH4IV ACGT 1 cut(s) 552
HpyCH4V TGCA 2 cut(s) 8, 163
HpyF10VI GCNNNNNNNGC 4 cut(s) 14, 35, 589, 633
HpyF3I CTNAG 1 cut(s) 563
HpySE526I ACGT 1 cut(s) 552
Hsp92I GRCGYC 2 cut(s) 236, 552
Hsp92II CATG 5 cut(s) 25, 115, 509, 623, 680
HspAI GCGC 1 cut(s) 236
KasI GGCGCC 1 cut(s) 235
Kpn2I TCCGGA 1 cut(s) 177
Kzo9I GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
LmnI GCTCC 1 cut(s) 588
Lsp1109I GCAGC 2 cut(s) 20, 175
LweI GCATC 4 cut(s) 26, 466, 623, 652
MaeI CTAG 3 cut(s) 261, 528, 639
MaeII ACGT 1 cut(s) 552
MalI GATC 7 cut(s) 14, 193, 252, 328, 453, 510, 682
MboI GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
MboII GAAGA 2 cut(s) 77, 302
MfeI CAATTG 2 cut(s) 72, 429
MflI RGATCY 2 cut(s) 191, 250
MlsI TGGCCA 1 cut(s) 627
MluCI AATT 3 cut(s) 72, 121, 429
MluNI TGGCCA 1 cut(s) 627
Mly113I GGCGCC 1 cut(s) 236
MlyI GAGTC 1 cut(s) 454
MmeI TCCRAC 2 cut(s) 482, 633
MnlI CCTC 6 cut(s) 52, 195, 286, 393, 430, 439
Mox20I TGGCCA 1 cut(s) 627
MroI TCCGGA 1 cut(s) 177
MroXI GAANNNNTTC 1 cut(s) 107
MscI TGGCCA 1 cut(s) 627
MseI TTAA 1 cut(s) 144
MslI CAYNNNNRTG 2 cut(s) 276, 603
Msp20I TGGCCA 1 cut(s) 627
MspA1I CMGCKG 2 cut(s) 166, 304
MspI CCGG 6 cut(s) 178, 283, 342, 386, 412, 512
MspR9I CCNGG 1 cut(s) 387
MunI CAATTG 2 cut(s) 72, 429
MwoI GCNNNNNNNGC 4 cut(s) 14, 35, 589, 633
NarI GGCGCC 1 cut(s) 236
NciI CCSGG 1 cut(s) 387
NdeII GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
NlaIII CATG 5 cut(s) 25, 115, 509, 623, 680
NlaIV GGNNCC 3 cut(s) 214, 237, 584
OliI CACNNNNGTG 1 cut(s) 603
PcsI WCGNNNNNNNCGW 1 cut(s) 293
PdmI GAANNNNTTC 1 cut(s) 107
PfeI GAWTC 4 cut(s) 85, 170, 567, 616
PkrI GCNGC 5 cut(s) 7, 10, 165, 240, 333
Ple19I CGATCG 1 cut(s) 15
PleI GAGTC 1 cut(s) 454
PluTI GGCGCC 1 cut(s) 239
PpsI GAGTC 1 cut(s) 454
PspFI CCCAGC 1 cut(s) 665
PspN4I GGNNCC 3 cut(s) 214, 237, 584
PspPI GGNCC 1 cut(s) 213
PstI CTGCAG 1 cut(s) 10
PsuI RGATCY 2 cut(s) 191, 250
PvuI CGATCG 1 cut(s) 15
PvuII CAGCTG 2 cut(s) 166, 304
RgaI GCGATCGC 1 cut(s) 15
RsaI GTAC 1 cut(s) 225
RsaNI GTAC 1 cut(s) 224
RseI CAYNNNNRTG 2 cut(s) 276, 603
SaqAI TTAA 1 cut(s) 144
SatI GCNGC 5 cut(s) 6, 9, 164, 239, 332
Sau3AI GATC 7 cut(s) 12, 191, 250, 326, 451, 508, 680
Sau96I GGNCC 1 cut(s) 213
SchI GAGTC 1 cut(s) 454
ScrFI CCNGG 1 cut(s) 387
SfaAI GCGATCGC 1 cut(s) 15
SfaNI GCATC 4 cut(s) 26, 466, 623, 652
SfcI CTRYAG 1 cut(s) 6
SfoI GGCGCC 1 cut(s) 237
SgfI GCGATCGC 1 cut(s) 15
SinI GGWCC 1 cut(s) 213
SmiMI CAYNNNNRTG 2 cut(s) 276, 603
SmlI CTYRAG 1 cut(s) 53
SmoI CTYRAG 1 cut(s) 53
Sse9I AATT 3 cut(s) 72, 121, 429
SsiI CCGC 2 cut(s) 239, 332
SspDI GGCGCC 1 cut(s) 235
SspMI CTAG 3 cut(s) 261, 528, 639
StyD4I CCNGG 1 cut(s) 385
StyI CCWWGG 4 cut(s) 230, 527, 586, 638
TaaI ACNGT 3 cut(s) 48, 217, 247
TaiI ACGT 1 cut(s) 555
TasI AATT 3 cut(s) 72, 121, 429
TauI GCSGC 2 cut(s) 241, 334
TfiI GAWTC 4 cut(s) 85, 170, 567, 616
Tru1I TTAA 1 cut(s) 144
Tru9I TTAA 1 cut(s) 144
TseI GCWGC 3 cut(s) 5, 8, 163
TspDTI ATGAA 2 cut(s) 100, 591
TspGWI ACGGA 2 cut(s) 302, 534
VpaK11BI GGWCC 1 cut(s) 213
XapI RAATTY 1 cut(s) 121
XmaJI CCTAGG 2 cut(s) 527, 638
XmnI GAANNNNTTC 1 cut(s) 107
XspI CTAG 3 cut(s) 261, 528, 639
ZraI GACGTC 1 cut(s) 553
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.