RchiOBHm_Chr6g0265791

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000172
Physical Location & Seq
Forward (+)
21732648 .. 21733321
674 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ23834

Sequence Viewer

Length: 354 bp
ATGCTGGATTCATTCCGGAGCGCTGTAAGATCTATGTGGAGGTTGACTGGAACCGTGGAGGTACAACCAAGGGGTGACCGTTTTCTGTTTACATTCACCCATGACAGGGATGTTGCTAGAGTAAAGAAGGGAGGACCGTGGGGCTTCCAACGTGCCATGATTCTCCTGAATGACTACGATGGGTTTTCGGAGCTCTCTGCAGTGAGGTTGGATTTTGTTTGGATCTGGGTTACACTTGATGGCATACCTCCGGGTATTTTGACAGAACCTACCGTCCGGTTGGTTGGTGGGACAATTGGCGAGGTGCTGGAGGTGGATCGTCCGGCGCTGCATAGGGGCGATGCTCGGGTATGA
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

117

Amino Acids

13.23

Weight (kDa)

6.73

Isoelectric Point (pI)

24.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4283 PF14111 4 - 60 7.7e-06 Domain of unknown function (DUF4283)
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)
AccIII TCCGGA 1 cut(s) 15
AclWI GGATC 2 cut(s) 230, 324
AfaI GTAC 1 cut(s) 63
AfeI AGCGCT 1 cut(s) 22
AfiI CCNNNNNNNGG 2 cut(s) 105, 106
AloI GAACNNNNNNTCC 2 cut(s) 258, 290
AluBI AGCT 1 cut(s) 193
AluI AGCT 1 cut(s) 193
Alw21I GWGCWC 1 cut(s) 195
AlwI GGATC 2 cut(s) 230, 324
Ama87I CYCGRG 1 cut(s) 345
Aor13HI TCCGGA 1 cut(s) 15
Aor51HI AGCGCT 1 cut(s) 22
ApeKI GCWGC 1 cut(s) 328
AspLEI GCGC 2 cut(s) 23, 328
AspS9I GGNCC 1 cut(s) 134
AsuC2I CCSGG 1 cut(s) 252
AsuHPI GGTGA 2 cut(s) 86, 88
AvaI CYCGRG 1 cut(s) 345
AvaII GGWCC 1 cut(s) 134
BanII GRGCYC 1 cut(s) 195
Bbv12I GWGCWC 1 cut(s) 195
BbvI GCAGC 1 cut(s) 315
BccI CCATC 2 cut(s) 173, 233
BcnI CCSGG 1 cut(s) 252
BfaI CTAG 1 cut(s) 117
BfmI CTRYAG 1 cut(s) 198
BfoI RGCGCY 2 cut(s) 24, 329
BglII AGATCT 1 cut(s) 29
BisI GCNGC 1 cut(s) 329
BlsI GCNGC 1 cut(s) 330
Bme1390I CCNGG 1 cut(s) 252
Bme18I GGWCC 1 cut(s) 134
BmeT110I CYCGRG 1 cut(s) 345
BmgT120I GGNCC 1 cut(s) 134
BmiI GGNNCC 1 cut(s) 52
BmrFI CCNGG 1 cut(s) 252
BmsI GCATC 1 cut(s) 331
BpmI CTGGAG 1 cut(s) 329
BpuMI CCSGG 1 cut(s) 252
BsaJI CCNNGG 3 cut(s) 54, 68, 137
BsaWI WCCGGW 2 cut(s) 15, 276
Bsc4I CCNNNNNNNGG 2 cut(s) 105, 106
Bse1I ACTGG 1 cut(s) 52
BseAI TCCGGA 1 cut(s) 15
BseDI CCNNGG 3 cut(s) 54, 68, 137
BseGI GGATG 1 cut(s) 115
BseLI CCNNNNNNNGG 2 cut(s) 105, 106
BseNI ACTGG 1 cut(s) 52
BseXI GCAGC 1 cut(s) 315
BsiHKAI GWGCWC 1 cut(s) 195
BsiHKCI CYCGRG 1 cut(s) 345
BsiSI CCGG 4 cut(s) 16, 251, 277, 323
BslFI GGGAC 1 cut(s) 304
BslI CCNNNNNNNGG 2 cut(s) 105, 106
BsmFI GGGAC 1 cut(s) 304
BsoBI CYCGRG 1 cut(s) 345
Bsp1286I GDGCHC 1 cut(s) 195
Bsp13I TCCGGA 1 cut(s) 15
Bsp143I GATC 3 cut(s) 29, 222, 316
BspEI TCCGGA 1 cut(s) 15
BspLI GGNNCC 1 cut(s) 52
BspMAI CTGCAG 1 cut(s) 202
BspPI GGATC 2 cut(s) 230, 324
BsrI ACTGG 1 cut(s) 52
BssECI CCNNGG 3 cut(s) 54, 68, 137
BssMI GATC 3 cut(s) 29, 222, 316
BssT1I CCWWGG 1 cut(s) 68
Bst4CI ACNGT 4 cut(s) 55, 80, 138, 274
BstDSI CCRYGG 2 cut(s) 54, 137
BstEII GGTNACC 1 cut(s) 74
BstF5I GGATG 1 cut(s) 115
BstH2I RGCGCY 2 cut(s) 24, 329
BstHHI GCGC 2 cut(s) 23, 328
BstKTI GATC 3 cut(s) 32, 225, 319
BstMBI GATC 3 cut(s) 29, 222, 316
BstPI GGTNACC 1 cut(s) 74
BstSCI CCNGG 1 cut(s) 250
BstSFI CTRYAG 1 cut(s) 198
BstV1I GCAGC 1 cut(s) 315
BstX2I RGATCY 2 cut(s) 29, 222
BstYI RGATCY 2 cut(s) 29, 222
BtgI CCRYGG 2 cut(s) 54, 137
BtsCI GGATG 1 cut(s) 115
BtsI GCAGTG 1 cut(s) 207
BtsIMutI CAGTG 1 cut(s) 207
CfoI GCGC 2 cut(s) 23, 328
Cfr13I GGNCC 1 cut(s) 134
Csp6I GTAC 1 cut(s) 62
CviAII CATG 2 cut(s) 101, 157
CviJI RGCY 2 cut(s) 144, 193
CviKI_1 RGCY 2 cut(s) 144, 193
CviQI GTAC 1 cut(s) 62
DpnI GATC 3 cut(s) 31, 224, 318
DpnII GATC 3 cut(s) 29, 222, 316
Ecl136II GAGCTC 1 cut(s) 193
Eco130I CCWWGG 1 cut(s) 68
Eco24I GRGCYC 1 cut(s) 195
Eco47I GGWCC 1 cut(s) 134
Eco47III AGCGCT 1 cut(s) 22
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 1 cut(s) 68
EcoT38I GRGCYC 1 cut(s) 195
ErhI CCWWGG 1 cut(s) 68
FaeI CATG 2 cut(s) 104, 160
FaiI YATR 6 cut(s) 35, 102, 158, 245, 333, 352
FaqI GGGAC 1 cut(s) 304
FatI CATG 2 cut(s) 100, 156
Fnu4HI GCNGC 1 cut(s) 329
FokI GGATG 1 cut(s) 122
FriOI GRGCYC 1 cut(s) 195
Fsp4HI GCNGC 1 cut(s) 329
FspBI CTAG 1 cut(s) 117
GlaI GCGC 2 cut(s) 22, 327
GluI GCNGC 1 cut(s) 329
GsuI CTGGAG 1 cut(s) 329
HaeII RGCGCY 2 cut(s) 24, 329
HapII CCGG 4 cut(s) 16, 251, 277, 323
HhaI GCGC 2 cut(s) 23, 328
Hin1II CATG 2 cut(s) 104, 160
Hin6I GCGC 2 cut(s) 21, 326
HinP1I GCGC 2 cut(s) 21, 326
HincII GTYRAC 1 cut(s) 45
HindII GTYRAC 1 cut(s) 45
HinfI GANTC 2 cut(s) 8, 160
HpaII CCGG 4 cut(s) 16, 251, 277, 323
HphI GGTGA 2 cut(s) 86, 88
Hpy166II GTNNAC 2 cut(s) 45, 90
Hpy188I TCNGA 1 cut(s) 190
Hpy188III TCNNGA 2 cut(s) 16, 166
Hpy8I GTNNAC 2 cut(s) 45, 90
HpyAV CCTTC 1 cut(s) 121
HpyCH4III ACNGT 4 cut(s) 55, 80, 138, 274
HpyCH4IV ACGT 1 cut(s) 151
HpyCH4V TGCA 2 cut(s) 200, 331
HpySE526I ACGT 1 cut(s) 151
Hsp92II CATG 2 cut(s) 104, 160
HspAI GCGC 2 cut(s) 21, 326
Kpn2I TCCGGA 1 cut(s) 15
Kzo9I GATC 3 cut(s) 29, 222, 316
LmnI GCTCC 2 cut(s) 18, 190
LpnPI CCDG 9 cut(s) 29, 33, 91, 179, 211, 264, 290, 293, 336
Lsp1109I GCAGC 1 cut(s) 315
LweI GCATC 1 cut(s) 331
MaeI CTAG 1 cut(s) 117
MaeII ACGT 1 cut(s) 151
MaeIII GTNAC 2 cut(s) 74, 229
MalI GATC 3 cut(s) 31, 224, 318
MboI GATC 3 cut(s) 29, 222, 316
MfeI CAATTG 1 cut(s) 294
MflI RGATCY 2 cut(s) 29, 222
MhlI GDGCHC 1 cut(s) 195
MluCI AATT 1 cut(s) 294
MmeI TCCRAC 2 cut(s) 172, 189
MnlI CCTC 7 cut(s) 33, 52, 125, 198, 258, 295, 304
MroI TCCGGA 1 cut(s) 15
MspI CCGG 4 cut(s) 16, 251, 277, 323
MspR9I CCNGG 1 cut(s) 252
MunI CAATTG 1 cut(s) 294
NciI CCSGG 1 cut(s) 252
NdeII GATC 3 cut(s) 29, 222, 316
NlaIII CATG 2 cut(s) 104, 160
NlaIV GGNNCC 1 cut(s) 52
NmuCI GTSAC 1 cut(s) 74
PfeI GAWTC 2 cut(s) 8, 160
PkrI GCNGC 1 cut(s) 330
Psp124BI GAGCTC 1 cut(s) 195
PspEI GGTNACC 1 cut(s) 74
PspN4I GGNNCC 1 cut(s) 52
PspPI GGNCC 1 cut(s) 134
PstI CTGCAG 1 cut(s) 202
PsuI RGATCY 2 cut(s) 29, 222
RsaI GTAC 1 cut(s) 63
RsaNI GTAC 1 cut(s) 62
SacI GAGCTC 1 cut(s) 195
SatI GCNGC 1 cut(s) 329
Sau3AI GATC 3 cut(s) 29, 222, 316
Sau96I GGNCC 1 cut(s) 134
ScrFI CCNGG 1 cut(s) 252
SduI GDGCHC 1 cut(s) 195
SetI ASST 9 cut(s) 44, 63, 154, 195, 209, 250, 271, 306, 315
SfaNI GCATC 1 cut(s) 331
SfcI CTRYAG 1 cut(s) 198
SinI GGWCC 1 cut(s) 134
Sse9I AATT 1 cut(s) 294
SspMI CTAG 1 cut(s) 117
SstI GAGCTC 1 cut(s) 195
StyD4I CCNGG 1 cut(s) 250
StyI CCWWGG 1 cut(s) 68
TaaI ACNGT 4 cut(s) 55, 80, 138, 274
TaiI ACGT 1 cut(s) 154
TasI AATT 1 cut(s) 294
TfiI GAWTC 2 cut(s) 8, 160
TscAI CASTG 1 cut(s) 207
TseFI GTSAC 1 cut(s) 74
TseI GCWGC 1 cut(s) 328
Tsp45I GTSAC 1 cut(s) 74
TspRI CASTG 1 cut(s) 207
VpaK11BI GGWCC 1 cut(s) 134
XspI CTAG 1 cut(s) 117
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.