RchiOBHm_Chr1g0344871

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000172
Physical Location & Seq
Forward (+)
37228852 .. 37229475
624 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ57127

Sequence Viewer

Length: 624 bp
ATGCTGGATTCATTCCGGAGTGATGTAAGATCTATGTGGAGGTTGACGGGGACCGTGGAGGTACATCCAAGGGGTGACCGTTTTCTGTTTACATTTAACCATGAAAGGGATGTTGCTAGAGTAAAGAAGGGAGGACCGTGGGGCTTCCAACATGCCATGATTCTTCTGAATGACTACGATGGGTTTTTGGAGCTCTCTGTAGTGAGGTTGGATTTTGTTTGGATCTGGGTTACGCTTGATGGCATACCTCCGGGTATTTTGACGGAACCTACCGTCCGGTTGGTTGGTGGGACAATTGGCGAGGTGTTGGAGGTGGATCGTCCAGCGTTGCGTAGGGGCGATGCTCGAGTCAGGCTTGTTCTCTCTATCCATGATCCGGTGTGTCTCGACGGTAGGGTTAGGGTTTCTCCCTCTGACGTCCTAACCCTACGATTCAGGTATGAAAGGCTCCTTGGGCATTGCCATTCCTGTGGTATGCTGAATCATGGTGGCCAGCGATGCCCTAGGGTGGACGAGTTGGCAGCTGATGCTGGGGCGGAGCAGGGATCACAAACGGCTGTGGACCGATCGTTCCAGCCCTTGTCTTTAGGGCAAACGTTCAGCCCTCTATCTCTTCTCCATTGA
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

207

Amino Acids

23.21

Weight (kDa)

6.7

Isoelectric Point (pI)

34.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4283 PF14111 4 - 60 1.6e-06 Domain of unknown function (DUF4283)
zf-CCHC_4 PF14392 123 - 168 1.7e-09 Zinc knuckle
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: 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)
AatII GACGTC 1 cut(s) 420
AccIII TCCGGA 1 cut(s) 15
AciI CCGC 1 cut(s) 536
AclI AACGTT 1 cut(s) 596
AclWI GGATC 4 cut(s) 230, 324, 368, 553
AcoI YGGCCR 1 cut(s) 490
AcyI GRCGYC 1 cut(s) 417
AfaI GTAC 1 cut(s) 63
AfiI CCNNNNNNNGG 3 cut(s) 106, 376, 508
AjuI GAANNNNNNNTTGG 2 cut(s) 435, 467
AloI GAACNNNNNNTCC 4 cut(s) 258, 290, 554, 586
AluBI AGCT 2 cut(s) 193, 524
AluI AGCT 2 cut(s) 193, 524
Alw21I GWGCWC 1 cut(s) 195
Alw26I GTCTC 1 cut(s) 389
AlwI GGATC 4 cut(s) 230, 324, 368, 553
Ama87I CYCGRG 1 cut(s) 345
Aor13HI TCCGGA 1 cut(s) 15
AoxI GGCC 1 cut(s) 490
ApeKI GCWGC 1 cut(s) 521
AspA2I CCTAGG 1 cut(s) 503
AspS9I GGNCC 3 cut(s) 51, 134, 562
AsuC2I CCSGG 1 cut(s) 252
AsuHPI GGTGA 1 cut(s) 86
AvaI CYCGRG 1 cut(s) 345
AvaII GGWCC 3 cut(s) 51, 134, 562
AvrII CCTAGG 1 cut(s) 503
BalI TGGCCA 1 cut(s) 492
BanII GRGCYC 1 cut(s) 195
Bbv12I GWGCWC 1 cut(s) 195
BbvI GCAGC 1 cut(s) 533
BccI CCATC 2 cut(s) 173, 233
BceAI ACGGC 1 cut(s) 570
BcnI CCSGG 1 cut(s) 252
BcoDI GTCTC 1 cut(s) 389
BfaI CTAG 2 cut(s) 117, 504
BfmI CTRYAG 1 cut(s) 198
BglII AGATCT 1 cut(s) 29
BisI GCNGC 1 cut(s) 522
BlnI CCTAGG 1 cut(s) 503
BlsI GCNGC 1 cut(s) 523
Bme1390I CCNGG 1 cut(s) 252
Bme18I GGWCC 3 cut(s) 51, 134, 562
BmeT110I CYCGRG 1 cut(s) 345
BmgT120I GGNCC 3 cut(s) 51, 134, 562
BmiI GGNNCC 3 cut(s) 52, 267, 449
BmrFI CCNGG 1 cut(s) 252
BmsI GCATC 3 cut(s) 331, 488, 517
BpuMI CCSGG 1 cut(s) 252
BsaHI GRCGYC 1 cut(s) 417
BsaJI CCNNGG 5 cut(s) 54, 68, 137, 451, 503
BsaWI WCCGGW 3 cut(s) 15, 276, 376
Bsc4I CCNNNNNNNGG 3 cut(s) 106, 376, 508
Bse3DI GCAATG 1 cut(s) 457
BseAI TCCGGA 1 cut(s) 15
BseDI CCNNGG 5 cut(s) 54, 68, 137, 451, 503
BseGI GGATG 2 cut(s) 64, 115
BseLI CCNNNNNNNGG 3 cut(s) 106, 376, 508
BseMI GCAATG 1 cut(s) 457
BseXI GCAGC 1 cut(s) 533
BseYI CCCAGC 1 cut(s) 530
Bsh1285I CGRYCG 1 cut(s) 569
BshFI GGCC 1 cut(s) 492
BsiEI CGRYCG 1 cut(s) 569
BsiHKAI GWGCWC 1 cut(s) 195
BsiHKCI CYCGRG 1 cut(s) 345
BsiSI CCGG 4 cut(s) 16, 251, 277, 377
BslFI GGGAC 2 cut(s) 64, 304
BslI CCNNNNNNNGG 3 cut(s) 106, 376, 508
BsmAI GTCTC 1 cut(s) 389
BsmFI GGGAC 2 cut(s) 64, 304
BsnI GGCC 1 cut(s) 492
BsoBI CYCGRG 1 cut(s) 345
Bsp1286I GDGCHC 1 cut(s) 195
Bsp13I TCCGGA 1 cut(s) 15
Bsp143I GATC 6 cut(s) 29, 222, 316, 373, 545, 566
BspACI CCGC 1 cut(s) 536
BspANI GGCC 1 cut(s) 492
BspEI TCCGGA 1 cut(s) 15
BspLI GGNNCC 3 cut(s) 52, 267, 449
BspPI GGATC 4 cut(s) 230, 324, 368, 553
BsrDI GCAATG 1 cut(s) 457
BssECI CCNNGG 5 cut(s) 54, 68, 137, 451, 503
BssMI GATC 6 cut(s) 29, 222, 316, 373, 545, 566
BssNI GRCGYC 1 cut(s) 417
BssT1I CCWWGG 3 cut(s) 68, 451, 503
Bst4CI ACNGT 5 cut(s) 55, 80, 138, 274, 392
Bst6I CTCTTC 1 cut(s) 618
BstACI GRCGYC 1 cut(s) 417
BstAPI GCANNNNNTGC 1 cut(s) 527
BstC8I GCNNGC 1 cut(s) 494
BstDSI CCRYGG 2 cut(s) 54, 137
BstEII GGTNACC 1 cut(s) 74
BstF5I GGATG 2 cut(s) 64, 115
BstKTI GATC 6 cut(s) 32, 225, 319, 376, 548, 569
BstMAI GTCTC 1 cut(s) 389
BstMBI GATC 6 cut(s) 29, 222, 316, 373, 545, 566
BstMCI CGRYCG 1 cut(s) 569
BstMWI GCNNNNNNNGC 3 cut(s) 454, 498, 527
BstNSI RCATGY 1 cut(s) 155
BstPI GGTNACC 1 cut(s) 74
BstSCI CCNGG 1 cut(s) 250
BstSFI CTRYAG 1 cut(s) 198
BstV1I GCAGC 1 cut(s) 533
BstX2I RGATCY 2 cut(s) 29, 222
BstXI CCANNNNNNTGG 1 cut(s) 470
BstYI RGATCY 2 cut(s) 29, 222
BsuRI GGCC 1 cut(s) 492
BtgI CCRYGG 2 cut(s) 54, 137
BtgZI GCGATG 2 cut(s) 354, 511
BtsCI GGATG 2 cut(s) 64, 115
Cac8I GCNNGC 1 cut(s) 494
Cfr13I GGNCC 3 cut(s) 51, 134, 562
Csp6I GTAC 1 cut(s) 62
CviAII CATG 5 cut(s) 101, 152, 157, 371, 485
CviJI RGCY 9 cut(s) 144, 193, 355, 448, 492, 524, 557, 577, 603
CviKI_1 RGCY 9 cut(s) 144, 193, 355, 448, 492, 524, 557, 577, 603
CviQI GTAC 1 cut(s) 62
DpnI GATC 6 cut(s) 31, 224, 318, 375, 547, 568
DpnII GATC 6 cut(s) 29, 222, 316, 373, 545, 566
EaeI YGGCCR 1 cut(s) 490
Eam1104I CTCTTC 1 cut(s) 618
EarI CTCTTC 1 cut(s) 618
EciI GGCGGA 1 cut(s) 551
Ecl136II GAGCTC 1 cut(s) 193
Eco130I CCWWGG 3 cut(s) 68, 451, 503
Eco24I GRGCYC 1 cut(s) 195
Eco47I GGWCC 3 cut(s) 51, 134, 562
Eco53kI GAGCTC 1 cut(s) 193
Eco88I CYCGRG 1 cut(s) 345
Eco91I GGTNACC 1 cut(s) 74
EcoICRI GAGCTC 1 cut(s) 193
EcoO65I GGTNACC 1 cut(s) 74
EcoT14I CCWWGG 3 cut(s) 68, 451, 503
EcoT38I GRGCYC 1 cut(s) 195
ErhI CCWWGG 3 cut(s) 68, 451, 503
FaeI CATG 5 cut(s) 104, 155, 160, 374, 488
FaiI YATR 9 cut(s) 35, 102, 153, 158, 245, 372, 441, 476, 486
FaqI GGGAC 2 cut(s) 64, 304
FatI CATG 5 cut(s) 100, 151, 156, 370, 484
Fnu4HI GCNGC 1 cut(s) 522
FokI GGATG 2 cut(s) 51, 122
FriOI GRGCYC 1 cut(s) 195
Fsp4HI GCNGC 1 cut(s) 522
FspBI CTAG 2 cut(s) 117, 504
GluI GCNGC 1 cut(s) 522
GsaI CCCAGC 1 cut(s) 534
HaeIII GGCC 1 cut(s) 492
HapII CCGG 4 cut(s) 16, 251, 277, 377
Hin1I GRCGYC 1 cut(s) 417
Hin1II CATG 5 cut(s) 104, 155, 160, 374, 488
HincII GTYRAC 1 cut(s) 45
HindII GTYRAC 1 cut(s) 45
HinfI GANTC 5 cut(s) 8, 160, 348, 432, 481
HpaII CCGG 4 cut(s) 16, 251, 277, 377
HphI GGTGA 1 cut(s) 86
Hpy166II GTNNAC 4 cut(s) 45, 90, 511, 562
Hpy188I TCNGA 2 cut(s) 168, 415
Hpy188III TCNNGA 2 cut(s) 16, 386
Hpy8I GTNNAC 4 cut(s) 45, 90, 511, 562
Hpy99I CGWCG 1 cut(s) 392
HpyAV CCTTC 1 cut(s) 121
HpyCH4III ACNGT 5 cut(s) 55, 80, 138, 274, 392
HpyCH4IV ACGT 2 cut(s) 417, 596
HpyF10VI GCNNNNNNNGC 3 cut(s) 454, 498, 527
HpySE526I ACGT 2 cut(s) 417, 596
Hsp92I GRCGYC 1 cut(s) 417
Hsp92II CATG 5 cut(s) 104, 155, 160, 374, 488
Kpn2I TCCGGA 1 cut(s) 15
Kzo9I GATC 6 cut(s) 29, 222, 316, 373, 545, 566
LmnI GCTCC 3 cut(s) 190, 453, 538
Lsp1109I GCAGC 1 cut(s) 533
LweI GCATC 3 cut(s) 331, 488, 517
MaeI CTAG 2 cut(s) 117, 504
MaeII ACGT 2 cut(s) 417, 596
MaeIII GTNAC 2 cut(s) 74, 229
MalI GATC 6 cut(s) 31, 224, 318, 375, 547, 568
MboI GATC 6 cut(s) 29, 222, 316, 373, 545, 566
MboII GAAGA 2 cut(s) 155, 605
MfeI CAATTG 1 cut(s) 294
MflI RGATCY 2 cut(s) 29, 222
MhlI GDGCHC 1 cut(s) 195
MlsI TGGCCA 1 cut(s) 492
MluCI AATT 1 cut(s) 294
MluNI TGGCCA 1 cut(s) 492
MlyI GAGTC 1 cut(s) 357
MmeI TCCRAC 3 cut(s) 172, 189, 288
MnlI CCTC 9 cut(s) 33, 52, 125, 198, 258, 295, 304, 421, 615
Mox20I TGGCCA 1 cut(s) 492
MroI TCCGGA 1 cut(s) 15
MscI TGGCCA 1 cut(s) 492
MseI TTAA 1 cut(s) 96
MslI CAYNNNNRTG 1 cut(s) 468
Msp20I TGGCCA 1 cut(s) 492
MspA1I CMGCKG 1 cut(s) 524
MspI CCGG 4 cut(s) 16, 251, 277, 377
MspR9I CCNGG 1 cut(s) 252
MunI CAATTG 1 cut(s) 294
MwoI GCNNNNNNNGC 3 cut(s) 454, 498, 527
NciI CCSGG 1 cut(s) 252
NdeII GATC 6 cut(s) 29, 222, 316, 373, 545, 566
NlaIII CATG 5 cut(s) 104, 155, 160, 374, 488
NlaIV GGNNCC 3 cut(s) 52, 267, 449
NmuCI GTSAC 1 cut(s) 74
NspI RCATGY 1 cut(s) 155
PaeR7I CTCGAG 1 cut(s) 345
PfeI GAWTC 4 cut(s) 8, 160, 432, 481
PkrI GCNGC 1 cut(s) 523
Ple19I CGATCG 1 cut(s) 569
PleI GAGTC 1 cut(s) 356
PpsI GAGTC 1 cut(s) 356
Psp124BI GAGCTC 1 cut(s) 195
Psp1406I AACGTT 1 cut(s) 596
PspEI GGTNACC 1 cut(s) 74
PspFI CCCAGC 1 cut(s) 530
PspN4I GGNNCC 3 cut(s) 52, 267, 449
PspPI GGNCC 3 cut(s) 51, 134, 562
PspXI VCTCGAGB 1 cut(s) 345
PsuI RGATCY 2 cut(s) 29, 222
PvuI CGATCG 1 cut(s) 569
PvuII CAGCTG 1 cut(s) 524
RsaI GTAC 1 cut(s) 63
RsaNI GTAC 1 cut(s) 62
RseI CAYNNNNRTG 1 cut(s) 468
SacI GAGCTC 1 cut(s) 195
SaqAI TTAA 1 cut(s) 96
SatI GCNGC 1 cut(s) 522
Sau3AI GATC 6 cut(s) 29, 222, 316, 373, 545, 566
Sau96I GGNCC 3 cut(s) 51, 134, 562
SchI GAGTC 1 cut(s) 357
ScrFI CCNGG 1 cut(s) 252
SduI GDGCHC 1 cut(s) 195
SfaNI GCATC 3 cut(s) 331, 488, 517
SfcI CTRYAG 1 cut(s) 198
Sfr274I CTCGAG 1 cut(s) 345
SinI GGWCC 3 cut(s) 51, 134, 562
SlaI CTCGAG 1 cut(s) 345
SmiMI CAYNNNNRTG 1 cut(s) 468
SmlI CTYRAG 1 cut(s) 345
SmoI CTYRAG 1 cut(s) 345
Sse9I AATT 1 cut(s) 294
SsiI CCGC 1 cut(s) 536
SspMI CTAG 2 cut(s) 117, 504
SstI GAGCTC 1 cut(s) 195
StyD4I CCNGG 1 cut(s) 250
StyI CCWWGG 3 cut(s) 68, 451, 503
TaaI ACNGT 5 cut(s) 55, 80, 138, 274, 392
TaiI ACGT 2 cut(s) 420, 599
TaqI TCGA 2 cut(s) 346, 387
TaqII GACCGA 1 cut(s) 579
TasI AATT 1 cut(s) 294
TfiI GAWTC 4 cut(s) 8, 160, 432, 481
Tru1I TTAA 1 cut(s) 96
Tru9I TTAA 1 cut(s) 96
TseFI GTSAC 1 cut(s) 74
TseI GCWGC 1 cut(s) 521
Tsp45I GTSAC 1 cut(s) 74
TspDTI ATGAA 2 cut(s) 117, 456
TspGWI ACGGA 1 cut(s) 278
VpaK11BI GGWCC 3 cut(s) 51, 134, 562
XceI RCATGY 1 cut(s) 155
XhoI CTCGAG 1 cut(s) 345
XmaJI CCTAGG 1 cut(s) 503
XspI CTAG 2 cut(s) 117, 504
ZraI GACGTC 1 cut(s) 418
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.