Rroxscaffold_4G00282170

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000123
Physical Location & Seq
Reverse (-)
4269238 .. 4271626
2389 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00282170.1

Sequence Viewer

Length: 516 bp
ATGCTCAATGCTAAAGCCCTAACCCTTATTGGGAATGCTTTGGGGAGGTTTGTTTGCTATGATCAGGCGGCTCTACAGAAGAAAGACGCCATCCAGAGGATTAGAGTGCTCCAAGACATTCATCGTCGGATTTGGGCTAAGCGCACTTTTTGTTTCTCACCAGAGGTATCAGTGGACCTCGATCTCAGGTACGAGAAGTGTCACGGTATTTGCACGAGTTGTGGCTACTTTGGTCATGCTGAGGGAGGTTGCGACATGGGGCTGATGGAGGCTGTGACGGCGCCTGGGCTAGTGGTGGAATCTGAGGTTGGGGTTGGCTCGGGTCTGGAGCTGGTGTCGTCGTCTGTGATGACTCTTGATCAGGGTTTGACAGGAGGGCCTTCAGCGGGGGCTGGGAAGGTTAGAGGTTTGTCAGAGATGGCTGCGCTGGTGTCGCTATTTGTTGCAGGTCGGGAAACGGAGGCGGGTCTTGGGCTGCTGCGATTTTCTCGACGAGAAACCCAAATTTTGAATTAG
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 Exo_endo_phos_2 RNase_H RVT_1 zf-CCHC_4

Protein Analysis

171

Amino Acids

18.28

Weight (kDa)

6.82

Isoelectric Point (pI)

43.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC_4 PF14392 39 - 85 7.9e-07 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000123)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G38140
fragaria_vesca FvH4_1g20041 FvH4_1g21262 FvH4_1g25072 FvH4_2g16250 FvH4_2g17190 FvH4_3g04330 FvH4_3g20250 FvH4_3g22272 FvH4_3g26421 FvH4_3g35981 FvH4_4g01621 FvH4_4g07081 FvH4_4g13902 FvH4_4g18461 FvH4_5g15851 FvH4_6g06531 FvH4_6g22500 FvH4_6g23161 FvH4_6g26861 FvH4_6g28682 FvH4_6g33163 FvH4_6g33591 FvH4_6g38140 FvH4_7g00272
malus_domestica MD05G1145500.v1.1 MD10G1144900.v1.1
prunus_persica Prupe.8G183300_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0109311 RchiOBHm_Chr2g0109451 RchiOBHm_Chr2g0164071 RchiOBHm_Chr3g0469891 RchiOBHm_Chr3g0477271 RchiOBHm_Chr6g0281681
rosa_laevigata RLG00000007350 RLG00000011905 RLG00000012951 RLG00000030154
rosa_multiflora Rmu_co8029630.1_g000001 Rmu_co8038194.1_g000001 Rmu_co8114330.1_g000001 Rmu_co8138832.1_g000001 Rmu_co8166524.1_g000001 Rmu_co8169592.1_g000001 Rmu_co8214120.1_g000001 Rmu_co8224140.1_g000001 Rmu_co8242461.1_g000001 Rmu_co8314423.1_g000002 Rmu_co8333117.1_g000001 Rmu_co8348539.1_g000002 Rmu_co8348927.1_g000001 Rmu_co8416111.1_g000001 Rmu_co8444475.1_g000001 Rmu_co8503525.1_g000001 Rmu_sc0000047.1_g000017 Rmu_sc0000076.1_g000047 Rmu_sc0000116.1_g000002 Rmu_sc0000146.1_g000004 Rmu_sc0000239.1_g000065 Rmu_sc0000335.1_g000105 Rmu_sc0000424.1_g000035 Rmu_sc0000517.1_g000021 Rmu_sc0000611.1_g000003 Rmu_sc0000770.1_g000050 Rmu_sc0000808.1_g000032 Rmu_sc0000811.1_g000026 Rmu_sc0000894.1_g000054 Rmu_sc0000898.1_g000082 Rmu_sc0000898.1_g000083 Rmu_sc0001350.1_g000029 Rmu_sc0001374.1_g000062 Rmu_sc0001405.1_g000018 Rmu_sc0001474.1_g000014 Rmu_sc0001526.1_g000021 Rmu_sc0001551.1_g000029 Rmu_sc0001557.1_g000004 Rmu_sc0001650.1_g000005 Rmu_sc0001650.1_g000013 Rmu_sc0001662.1_g000001 Rmu_sc0001673.1_g000030 Rmu_sc0001701.1_g000021 Rmu_sc0001814.1_g000019 Rmu_sc0002038.1_g000007 Rmu_sc0002179.1_g000011 Rmu_sc0002285.1_g000020 Rmu_sc0002575.1_g000023 Rmu_sc0002731.1_g000001 Rmu_sc0002944.1_g000021 Rmu_sc0003023.1_g000002 Rmu_sc0003129.1_g000006 Rmu_sc0003144.1_g000013 Rmu_sc0003156.1_g000010 Rmu_sc0003369.1_g000015 Rmu_sc0003410.1_g000028 Rmu_sc0003410.1_g000029 Rmu_sc0003507.1_g000033 Rmu_sc0003548.1_g000013 Rmu_sc0003605.1_g000027 Rmu_sc0003710.1_g000010 Rmu_sc0003863.1_g000009 Rmu_sc0003909.1_g000006 Rmu_sc0003916.1_g000023 Rmu_sc0003916.1_g000024 Rmu_sc0003930.1_g000009 Rmu_sc0004030.1_g000006 Rmu_sc0004046.1_g000018 Rmu_sc0004154.1_g000010 Rmu_sc0004191.1_g000011 Rmu_sc0004205.1_g000007 Rmu_sc0004556.1_g000006 Rmu_sc0004975.1_g000008 Rmu_sc0005038.1_g000028 Rmu_sc0005083.1_g000005 Rmu_sc0005220.1_g000016 Rmu_sc0005274.1_g000011 Rmu_sc0005378.1_g000023 Rmu_sc0005385.1_g000016 Rmu_sc0005424.1_g000023 Rmu_sc0005738.1_g000009 Rmu_sc0005798.1_g000015 Rmu_sc0005834.1_g000008 Rmu_sc0006128.1_g000007 Rmu_sc0006865.1_g000015 Rmu_sc0006925.1_g000001 Rmu_sc0007005.1_g000002 Rmu_sc0007025.1_g000017 Rmu_sc0007518.1_g000004 Rmu_sc0007813.1_g000002 Rmu_sc0008730.1_g000003 Rmu_sc0008861.1_g000008 Rmu_sc0008861.1_g000009 Rmu_sc0009624.1_g000009 Rmu_sc0010439.1_g000001 Rmu_sc0010719.1_g000003 Rmu_sc0011069.1_g000001 Rmu_sc0013102.1_g000007 Rmu_sc0013803.1_g000022 Rmu_sc0013860.1_g000004 Rmu_sc0014885.1_g000001 Rmu_sc0017338.1_g000001 Rmu_sc0017964.1_g000006 Rmu_sc0019100.1_g000002 Rmu_sc0020554.1_g000001 Rmu_sc0020928.1_g000001 Rmu_sc0021886.1_g000001 Rmu_sc0022276.1_g000001 Rmu_sc0022942.1_g000001 Rmu_sc0022945.1_g000001 Rmu_sc0023180.1_g000002 Rmu_sc0024149.1_g000001 Rmu_sc0024149.1_g000002 Rmu_sc0026250.1_g000001 Rmu_sc0029882.1_g000003 Rmu_sc0035589.1_g000001 Rmu_sc0035888.1_g000003 Rmu_sc0036257.1_g000001 Rmu_sc0036258.1_g000001 Rmu_sc0040283.1_g000002 Rmu_sc0042169.1_g000001 Rmu_ssc0000126.1_g000076 Rmu_ssc0000357.1_g000017 Rmu_ssc0000372.1_g000063 Rmu_ssc0000391.1_g000030 Rmu_ssc0000432.1_g000006 Rmu_ssc0000480.1_g000008
rosa_roxburghii Rroxscaffold_1G00047150 Rroxscaffold_2G00124620 Rroxscaffold_2G00130500 Rroxscaffold_2G00146610 Rroxscaffold_3G00260760 Rroxscaffold_3G00270900 Rroxscaffold_4G00282170 Rroxscaffold_6G00418750 Rroxscaffold_7G00186930
rosa_rugosa Rorug01G0267800 Rorug02G0132500 Rorug02G0156000 Rorug02G0163300 Rorug02G0282900 Rorug02G0283000 Rorug02G0439400 Rorug02G0488800 Rorug02G0488900 Rorug02G0556100 Rorug03G0101100 Rorug03G0101200 Rorug03G0130200 Rorug03G0223700 Rorug04G0015200 Rorug04G0032400 Rorug04G0043600 Rorug04G0049700 Rorug04G0137000 Rorug04G0178300 Rorug04G0198500 Rorug05G0298400 Rorug05G0438000 Rorug05G0499300 Rorug06G0025400 Rorug06G0142400 Rorug07G0108200 Rorug07G0111200
rosa_samantha Rh1CG412100 Rh2AG574700 Rh2BG495100 Rh2CG255400 Rh2CG263700 Rh2CG548300 Rh3BG288300 Rh3DG068500 Rh5CG272200 Rh5DG249700 Rh5DG397400 Rh6AG255100 Rh6BG258500 Rh6CG257300 Rh6DG249500 Rh6DG268300 Rh6DG381800 Rh7BG282800 Rh7BG372100
rosa_wichuraiana Rw4G024160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 437
AccB1I GGYRCC 1 cut(s) 280
AciI CCGC 3 cut(s) 68, 386, 464
AcsI RAATTY 1 cut(s) 504
AcuI CTGAAG 1 cut(s) 366
AcyI GRCGYC 2 cut(s) 87, 281
AfaI GTAC 1 cut(s) 191
AfiI CCNNNNNNNGG 3 cut(s) 30, 96, 386
AgsI TTSAA 1 cut(s) 511
AjnI CCWGG 1 cut(s) 283
AjuI GAANNNNNNNTTGG 2 cut(s) 291, 323
AluBI AGCT 1 cut(s) 331
AluI AGCT 1 cut(s) 331
Alw21I GWGCWC 1 cut(s) 111
Ama87I CYCGRG 1 cut(s) 319
AoxI GGCC 1 cut(s) 377
ApeKI GCWGC 3 cut(s) 422, 475, 478
ApoI RAATTY 1 cut(s) 504
AspLEI GCGC 3 cut(s) 144, 283, 427
AspS9I GGNCC 2 cut(s) 175, 377
AsuHPI GGTGA 1 cut(s) 150
AvaI CYCGRG 1 cut(s) 319
AvaII GGWCC 1 cut(s) 175
BanI GGYRCC 1 cut(s) 280
BauI CACGAG 1 cut(s) 214
Bbv12I GWGCWC 1 cut(s) 111
BbvCI CCTCAGC 1 cut(s) 240
BbvI GCAGC 3 cut(s) 409, 462, 465
BccI CCATC 3 cut(s) 98, 259, 412
BceAI ACGGC 1 cut(s) 294
BciT130I CCWGG 1 cut(s) 285
BclI TGATCA 2 cut(s) 61, 358
BfaI CTAG 1 cut(s) 290
BfmI CTRYAG 1 cut(s) 74
BfoI RGCGCY 1 cut(s) 284
BfuAI ACCTGC 1 cut(s) 437
BisI GCNGC 4 cut(s) 69, 423, 476, 479
BlpI GCTNAGC 1 cut(s) 138
BlsI GCNGC 4 cut(s) 70, 424, 477, 480
Bme1390I CCNGG 1 cut(s) 285
Bme18I GGWCC 1 cut(s) 175
BmeT110I CYCGRG 1 cut(s) 319
BmgT120I GGNCC 2 cut(s) 175, 377
BmiI GGNNCC 1 cut(s) 282
BmrFI CCNGG 1 cut(s) 285
BpmI CTGGAG 1 cut(s) 347
Bpu10I CCTNAGC 1 cut(s) 240
Bpu1102I GCTNAGC 1 cut(s) 138
BsaHI GRCGYC 2 cut(s) 87, 281
BsaJI CCNNGG 1 cut(s) 284
BsaXI ACNNNNNCTCC 2 cut(s) 320, 350
Bsc4I CCNNNNNNNGG 3 cut(s) 30, 96, 386
BseBI CCWGG 1 cut(s) 285
BseDI CCNNGG 1 cut(s) 284
BseGI GGATG 1 cut(s) 90
BseLI CCNNNNNNNGG 3 cut(s) 30, 96, 386
BseMII CTCAG 3 cut(s) 199, 231, 294
BseXI GCAGC 3 cut(s) 409, 462, 465
BseYI CCCAGC 1 cut(s) 392
BshFI GGCC 1 cut(s) 379
BshNI GGYRCC 1 cut(s) 280
BsiHKAI GWGCWC 1 cut(s) 111
BsiHKCI CYCGRG 1 cut(s) 319
BslI CCNNNNNNNGG 3 cut(s) 30, 96, 386
BsmI GAATGC 1 cut(s) 40
BsnI GGCC 1 cut(s) 379
BsoBI CYCGRG 1 cut(s) 319
Bsp1286I GDGCHC 1 cut(s) 111
Bsp143I GATC 3 cut(s) 61, 181, 358
Bsp1720I GCTNAGC 1 cut(s) 138
BspACI CCGC 3 cut(s) 68, 386, 464
BspANI GGCC 1 cut(s) 379
BspCNI CTCAG 3 cut(s) 198, 232, 295
BspLI GGNNCC 1 cut(s) 282
BspMI ACCTGC 1 cut(s) 437
BspT107I GGYRCC 1 cut(s) 280
BssECI CCNNGG 1 cut(s) 284
BssMI GATC 3 cut(s) 61, 181, 358
BssNI GRCGYC 2 cut(s) 87, 281
BssSI CACGAG 1 cut(s) 214
Bst2BI CACGAG 1 cut(s) 214
Bst2UI CCWGG 1 cut(s) 285
Bst4CI ACNGT 1 cut(s) 206
BstACI GRCGYC 2 cut(s) 87, 281
BstDEI CTNAG 4 cut(s) 138, 185, 240, 303
BstF5I GGATG 1 cut(s) 90
BstH2I RGCGCY 1 cut(s) 284
BstHHI GCGC 3 cut(s) 144, 283, 427
BstKTI GATC 3 cut(s) 64, 184, 361
BstMBI GATC 3 cut(s) 61, 181, 358
BstMWI GCNNNNNNNGC 2 cut(s) 278, 433
BstNI CCWGG 1 cut(s) 285
BstSCI CCNGG 1 cut(s) 283
BstSFI CTRYAG 1 cut(s) 74
BstV1I GCAGC 3 cut(s) 409, 462, 465
BsuRI GGCC 1 cut(s) 379
BtsCI GGATG 1 cut(s) 90
BtsIMutI CAGTG 1 cut(s) 177
BveI ACCTGC 1 cut(s) 437
CfoI GCGC 3 cut(s) 144, 283, 427
Cfr13I GGNCC 2 cut(s) 175, 377
CseI GACGC 1 cut(s) 95
Csp6I GTAC 1 cut(s) 190
CviAII CATG 2 cut(s) 236, 256
CviQI GTAC 1 cut(s) 190
DdeI CTNAG 4 cut(s) 138, 185, 240, 303
DinI GGCGCC 1 cut(s) 282
DpnI GATC 3 cut(s) 63, 183, 360
DpnII GATC 3 cut(s) 61, 181, 358
Eco47I GGWCC 1 cut(s) 175
Eco57I CTGAAG 1 cut(s) 366
Eco88I CYCGRG 1 cut(s) 319
EcoO109I RGGNCCY 1 cut(s) 377
EcoRII CCWGG 1 cut(s) 283
EgeI GGCGCC 1 cut(s) 282
EheI GGCGCC 1 cut(s) 282
FaeI CATG 2 cut(s) 239, 259
FaiI YATR 3 cut(s) 60, 237, 257
FatI CATG 2 cut(s) 235, 255
FauI CCCGC 2 cut(s) 379, 457
FbaI TGATCA 2 cut(s) 61, 358
Fnu4HI GCNGC 4 cut(s) 69, 423, 476, 479
FokI GGATG 1 cut(s) 77
Fsp4HI GCNGC 4 cut(s) 69, 423, 476, 479
FspBI CTAG 1 cut(s) 290
GlaI GCGC 3 cut(s) 143, 282, 426
GluI GCNGC 4 cut(s) 69, 423, 476, 479
GsaI CCCAGC 1 cut(s) 396
GsuI CTGGAG 1 cut(s) 347
HaeII RGCGCY 1 cut(s) 284
HaeIII GGCC 1 cut(s) 379
HgaI GACGC 1 cut(s) 95
HhaI GCGC 3 cut(s) 144, 283, 427
Hin1I GRCGYC 2 cut(s) 87, 281
Hin1II CATG 2 cut(s) 239, 259
Hin6I GCGC 3 cut(s) 142, 281, 425
HinP1I GCGC 3 cut(s) 142, 281, 425
HinfI GANTC 2 cut(s) 299, 352
HphI GGTGA 1 cut(s) 150
Hpy166II GTNNAC 1 cut(s) 175
Hpy188I TCNGA 3 cut(s) 129, 304, 415
Hpy188III TCNNGA 5 cut(s) 94, 326, 356, 452, 489
Hpy8I GTNNAC 1 cut(s) 175
Hpy99I CGWCG 3 cut(s) 129, 343, 495
HpyAV CCTTC 2 cut(s) 390, 391
HpyCH4III ACNGT 1 cut(s) 206
HpyCH4V TGCA 2 cut(s) 213, 446
HpyF10VI GCNNNNNNNGC 2 cut(s) 278, 433
HpyF3I CTNAG 4 cut(s) 138, 185, 240, 303
Hsp92I GRCGYC 2 cut(s) 87, 281
Hsp92II CATG 2 cut(s) 239, 259
HspAI GCGC 3 cut(s) 142, 281, 425
KasI GGCGCC 1 cut(s) 280
Ksp22I TGATCA 2 cut(s) 61, 358
Kzo9I GATC 3 cut(s) 61, 181, 358
LmnI GCTCC 2 cut(s) 114, 328
Lsp1109I GCAGC 3 cut(s) 409, 462, 465
MaeI CTAG 1 cut(s) 290
MaeIII GTNAC 2 cut(s) 200, 274
MalI GATC 3 cut(s) 63, 183, 360
MboI GATC 3 cut(s) 61, 181, 358
MboII GAAGA 1 cut(s) 91
MhlI GDGCHC 1 cut(s) 111
MluCI AATT 2 cut(s) 504, 511
Mly113I GGCGCC 1 cut(s) 281
MlyI GAGTC 1 cut(s) 346
MmeI TCCRAC 1 cut(s) 107
MspA1I CMGCKG 1 cut(s) 386
MspR9I CCNGG 1 cut(s) 285
Mva1269I GAATGC 1 cut(s) 40
MvaI CCWGG 1 cut(s) 285
MwoI GCNNNNNNNGC 2 cut(s) 278, 433
NarI GGCGCC 1 cut(s) 281
NdeII GATC 3 cut(s) 61, 181, 358
NlaIII CATG 2 cut(s) 239, 259
NlaIV GGNNCC 1 cut(s) 282
NmuCI GTSAC 2 cut(s) 200, 274
PctI GAATGC 1 cut(s) 40
PfeI GAWTC 1 cut(s) 299
PkrI GCNGC 4 cut(s) 70, 424, 477, 480
PleI GAGTC 1 cut(s) 346
PluTI GGCGCC 1 cut(s) 284
PpsI GAGTC 1 cut(s) 346
Psp6I CCWGG 1 cut(s) 283
PspFI CCCAGC 1 cut(s) 392
PspGI CCWGG 1 cut(s) 283
PspN4I GGNNCC 1 cut(s) 282
PspPI GGNCC 2 cut(s) 175, 377
RsaI GTAC 1 cut(s) 191
RsaNI GTAC 1 cut(s) 190
SatI GCNGC 4 cut(s) 69, 423, 476, 479
Sau3AI GATC 3 cut(s) 61, 181, 358
Sau96I GGNCC 2 cut(s) 175, 377
SchI GAGTC 1 cut(s) 346
ScrFI CCNGG 1 cut(s) 285
SduI GDGCHC 1 cut(s) 111
SfcI CTRYAG 1 cut(s) 74
SfoI GGCGCC 1 cut(s) 282
SinI GGWCC 1 cut(s) 175
Sse9I AATT 2 cut(s) 504, 511
SsiI CCGC 3 cut(s) 68, 386, 464
SspDI GGCGCC 1 cut(s) 280
SspMI CTAG 1 cut(s) 290
StyD4I CCNGG 1 cut(s) 283
TaaI ACNGT 1 cut(s) 206
TaqI TCGA 2 cut(s) 180, 490
TasI AATT 2 cut(s) 504, 511
TauI GCSGC 1 cut(s) 71
TfiI GAWTC 1 cut(s) 299
TscAI CASTG 1 cut(s) 177
TseFI GTSAC 2 cut(s) 200, 274
TseI GCWGC 3 cut(s) 422, 475, 478
Tsp45I GTSAC 2 cut(s) 200, 274
TspDTI ATGAA 1 cut(s) 110
TspGWI ACGGA 1 cut(s) 473
TspRI CASTG 1 cut(s) 177
VpaK11BI GGWCC 1 cut(s) 175
XapI RAATTY 1 cut(s) 504
XspI CTAG 1 cut(s) 290
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.