Rroxscaffold_7G00202440

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000109
Physical Location & Seq
Forward (+)
50517645 .. 50522511
4867 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00202440.1

Sequence Viewer

Length: 612 bp
ATGACCGAATTGATTATACCAATGAATGCATCTATTATATCCATTAAGGGACACAATGTTATTGCATCACCAAGAGATAATCCATTCACTCATAAGACAACTATGGTGTCTCAGATCAAGGCTATTGATTACTTAGATAAATTTAACTACAAGTCTAATACATATACATTGTACGTTCCTCGAGATCTCATCGGTTTACGAGCAATTGGTCGGGTGGAATTCGATGGTCCGCGGGATGTTGCTTGCTGTCCCGCTTCCCTCGGTCTGGTTTGGGTTGAGATCATGGGACTTCCTCTAGCTCTTATCACCGAGGGAGCGGTGGGGCTCATGGGAGCCACGGCGGGGAGGTTGTGCACCTCGACGAGTCGGGAATTCGCAAGGGTACCGCGGTGCGGGTTCGGATCGGACATGTCTTGTCCTCACCGTGAGACAGTATTTCCTCCCTCCACAATTGATTTTACGTCTAGAGCATATGCTACCGTGAGATTCGGGTACGAACGCCTCGTTGGTTTCTGTCGTGTACGTGGGATGATAGAGCACCAACGATTCATGTGTATTGGGGCCCCGAAGCGGTGGTGGTCTTCGTCGGCCATAACCCTAACCCTAACTTAG
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

203

Amino Acids

22.52

Weight (kDa)

9.21

Isoelectric Point (pI)

40.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC_4 PF14392 151 - 185 8.3e-08 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: OG0000109)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g11460 FvH4_1g20081 FvH4_1g21331 FvH4_1g22022 FvH4_1g27932 FvH4_2g04010 FvH4_2g07601 FvH4_2g09181 FvH4_2g18601 FvH4_2g24951 FvH4_2g27371 FvH4_3g15420 FvH4_3g26790 FvH4_3g26791 FvH4_3g34441 FvH4_3g34930 FvH4_3g45133 FvH4_4g02561 FvH4_4g05731 FvH4_4g05732 FvH4_4g06570 FvH4_4g09962 FvH4_4g13551 FvH4_4g13621 FvH4_4g14830 FvH4_4g15081 FvH4_4g26661 FvH4_5g05871 FvH4_5g08822 FvH4_5g12461 FvH4_5g24922 FvH4_5g30051 FvH4_5g30200 FvH4_5g30551 FvH4_5g32991 FvH4_5g36132 FvH4_5g37291 FvH4_6g07931 FvH4_6g08641 FvH4_6g12800 FvH4_6g13840 FvH4_6g13900 FvH4_6g16432 FvH4_6g16701 FvH4_6g28831 FvH4_6g31171 FvH4_6g41261 FvH4_7g00030 FvH4_7g01201 FvH4_7g08120 FvH4_7g10071 FvH4_7g18780
rosa_chinensis RchiOBHm_Chr2g0119561 RchiOBHm_Chr3g0458511 RchiOBHm_Chr3g0477731 RchiOBHm_Chr3g0479111 RchiOBHm_Chr3g0497091 RchiOBHm_Chr5g0072451 RchiOBHm_Chr6g0284681 RchiOBHm_Chr6g0311691 RchiOBHm_Chr7g0182191
rosa_laevigata RLG00000000983 RLG00000001598 RLG00000004616 RLG00000004931 RLG00000006806 RLG00000008371 RLG00000009544 RLG00000009718 RLG00000013465 RLG00000013533 RLG00000014631 RLG00000014987 RLG00000015588 RLG00000016226 RLG00000018171 RLG00000018433 RLG00000018649 RLG00000018710 RLG00000018870 RLG00000019205 RLG00000020638 RLG00000023424 RLG00000024707 RLG00000025967 RLG00000030020 RLG00000030596 RLG00000030996 RLG00000033451 RLG00000033757 RLG00000033758 RLG00000033808 RLG00000033812 RLG00000034857 RLG00000035240 RLG00000035691 RLG00000036232 RLG00000036301 RLG00000036412
rosa_multiflora Rmu_co8113544.1_g000001 Rmu_co8372331.1_g000001 Rmu_sc0000298.1_g000003 Rmu_sc0000552.1_g000026 Rmu_sc0000814.1_g000037 Rmu_sc0001211.1_g000126 Rmu_sc0001311.1_g000026 Rmu_sc0001354.1_g000009 Rmu_sc0002119.1_g000029 Rmu_sc0002357.1_g000020 Rmu_sc0002573.1_g000014 Rmu_sc0002586.1_g000022 Rmu_sc0003517.1_g000004 Rmu_sc0003558.1_g000001 Rmu_sc0004084.1_g000044 Rmu_sc0004143.1_g000011 Rmu_sc0004514.1_g000002 Rmu_sc0005370.1_g000004 Rmu_sc0005392.1_g000015 Rmu_sc0005664.1_g000009 Rmu_sc0006235.1_g000009 Rmu_sc0006423.1_g000001 Rmu_sc0006838.1_g000018 Rmu_sc0006847.1_g000005 Rmu_sc0006959.1_g000019 Rmu_sc0007111.1_g000002 Rmu_sc0009125.1_g000001 Rmu_sc0009546.1_g000015 Rmu_sc0009670.1_g000006 Rmu_sc0011618.1_g000004 Rmu_sc0012306.1_g000002 Rmu_sc0012306.1_g000003 Rmu_sc0012355.1_g000001 Rmu_sc0012355.1_g000002 Rmu_sc0013116.1_g000002 Rmu_sc0016872.1_g000001 Rmu_sc0017043.1_g000005 Rmu_sc0017081.1_g000003 Rmu_sc0018075.1_g000002 Rmu_sc0020578.1_g000002 Rmu_sc0034515.1_g000001 Rmu_sc0040072.1_g000003 Rmu_ssc0000309.1_g000056 Rmu_ssc0000330.1_g000048
rosa_roxburghii Rroxscaffold_1G00007410 Rroxscaffold_1G00027350 Rroxscaffold_1G00043810 Rroxscaffold_2G00099880 Rroxscaffold_2G00112650 Rroxscaffold_2G00122020 Rroxscaffold_3G00223350 Rroxscaffold_3G00239670 Rroxscaffold_5G00333740 Rroxscaffold_5G00335340 Rroxscaffold_5G00341030 Rroxscaffold_5G00342730 Rroxscaffold_6G00426030 Rroxscaffold_7G00162470 Rroxscaffold_7G00196110 Rroxscaffold_7G00202440 Rroxscaffold_7G00202450 Rroxscaffold_7G00215740
rosa_rugosa Rorug01G0176600 Rorug01G0276600 Rorug02G0236500 Rorug02G0277000 Rorug02G0363300 Rorug02G0375900 Rorug02G0473700 Rorug02G0546200 Rorug02G0601000 Rorug03G0158400 Rorug03G0289500 Rorug04G0026600 Rorug04G0090000 Rorug04G0105500 Rorug04G0263100 Rorug04G0394500 Rorug05G0122200 Rorug05G0152200 Rorug05G0541800 Rorug05G0551100 Rorug05G0554400 Rorug06G0244900 Rorug06G0401400
rosa_samantha Rh1CG158000 Rh1CG280800 Rh1CG326900 Rh2BG051500 Rh2BG101500 Rh2BG438200 Rh2BG509100 Rh2BG531600 Rh2BG531800 Rh2BG629800 Rh2BG629900 Rh2CG565300 Rh2DG448000 Rh2DG540600 Rh2DG540700 Rh2DG641700 Rh2DG641800 Rh3AG222200 Rh3BG034200 Rh3BG254700 Rh3DG286800 Rh3DG322600 Rh4AG009200 Rh4AG050400 Rh4AG223100 Rh4BG072500 Rh4BG106000 Rh4CG010200 Rh4CG053700 Rh4CG236100 Rh4CG236200 Rh4CG236300 Rh4DG104800 Rh5AG474800 Rh5BG214500 Rh5BG360000 Rh5BG403700 Rh5BG494900 Rh5DG255300 Rh6AG205400 Rh6BG227300 Rh6CG280700 Rh6DG273400 Rh7AG187300 Rh7AG220800 Rh7AG355700 Rh7AG462000 Rh7AG462200 Rh7AG465900 Rh7CG198300 Rh7CG222100 Rh7CG373000 Rh7CG479300 Rh7DG233800
rosa_wichuraiana Rw0G018350 Rw1G026500 Rw2G024750 Rw2G051200 Rw5G001570 Rw5G036850 Rw6G016070 Rw6G042710

Restriction Enzyme Sites

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Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 382
AccB1I GGYRCC 1 cut(s) 382
AccBSI CCGCTC 1 cut(s) 317
AccII CGCG 2 cut(s) 232, 388
AciI CCGC 9 cut(s) 230, 232, 252, 317, 341, 386, 388, 393, 571
AclWI GGATC 1 cut(s) 409
AcoI YGGCCR 1 cut(s) 588
AcsI RAATTY 3 cut(s) 140, 218, 371
AfaI GTAC 4 cut(s) 173, 384, 494, 522
AfiI CCNNNNNNNGG 4 cut(s) 265, 342, 392, 570
AflIII ACRYGT 1 cut(s) 408
AjuI GAANNNNNNNTTGG 2 cut(s) 489, 521
AluBI AGCT 1 cut(s) 299
AluI AGCT 1 cut(s) 299
Alw21I GWGCWC 2 cut(s) 356, 540
Alw26I GTCTC 2 cut(s) 114, 422
Alw44I GTGCAC 1 cut(s) 352
AlwI GGATC 1 cut(s) 409
Ama87I CYCGRG 1 cut(s) 180
AoxI GGCC 2 cut(s) 561, 588
ApaI GGGCCC 1 cut(s) 565
ApaLI GTGCAC 1 cut(s) 352
ApoI RAATTY 3 cut(s) 140, 218, 371
Asp718I GGTACC 1 cut(s) 382
AspS9I GGNCC 3 cut(s) 227, 561, 562
AsuHPI GGTGA 3 cut(s) 60, 298, 413
AvaI CYCGRG 1 cut(s) 180
AvaII GGWCC 1 cut(s) 227
BaeGI GKGCMC 2 cut(s) 356, 565
BaeI ACNNNNGTAYC 2 cut(s) 374, 407
BanI GGYRCC 1 cut(s) 382
BanII GRGCYC 2 cut(s) 327, 565
BbsI GAAGAC 1 cut(s) 573
Bbv12I GWGCWC 2 cut(s) 356, 540
BccI CCATC 1 cut(s) 218
BceAI ACGGC 1 cut(s) 354
BcoDI GTCTC 2 cut(s) 114, 422
BfaI CTAG 2 cut(s) 296, 465
BglII AGATCT 1 cut(s) 184
Bme18I GGWCC 1 cut(s) 227
BmeT110I CYCGRG 1 cut(s) 180
BmgT120I GGNCC 3 cut(s) 227, 561, 562
BmiI GGNNCC 5 cut(s) 334, 384, 562, 563, 564
BmsI GCATC 2 cut(s) 38, 74
BpiI GAAGAC 1 cut(s) 573
BsaAI YACGTR 1 cut(s) 524
BsaJI CCNNGG 5 cut(s) 230, 259, 309, 336, 386
Bsc4I CCNNNNNNNGG 4 cut(s) 265, 342, 392, 570
BseDI CCNNGG 5 cut(s) 230, 259, 309, 336, 386
BseGI GGATG 2 cut(s) 241, 534
BseLI CCNNNNNNNGG 4 cut(s) 265, 342, 392, 570
BseMII CTCAG 1 cut(s) 125
BseSI GKGCMC 2 cut(s) 356, 565
Bsh1236I CGCG 2 cut(s) 232, 388
BshFI GGCC 2 cut(s) 563, 590
BshNI GGYRCC 1 cut(s) 382
BsiHKAI GWGCWC 2 cut(s) 356, 540
BsiHKCI CYCGRG 1 cut(s) 180
BslFI GGGAC 3 cut(s) 63, 234, 300
BslI CCNNNNNNNGG 4 cut(s) 265, 342, 392, 570
BsmAI GTCTC 2 cut(s) 114, 422
BsmFI GGGAC 3 cut(s) 63, 234, 300
BsmI GAATGC 1 cut(s) 31
BsnI GGCC 2 cut(s) 563, 590
BsoBI CYCGRG 1 cut(s) 180
Bsp120I GGGCCC 1 cut(s) 561
Bsp1286I GDGCHC 4 cut(s) 327, 356, 540, 565
Bsp143I GATC 4 cut(s) 114, 184, 279, 401
BspACI CCGC 9 cut(s) 230, 232, 252, 317, 341, 386, 388, 393, 571
BspANI GGCC 2 cut(s) 563, 590
BspCNI CTCAG 1 cut(s) 124
BspFNI CGCG 2 cut(s) 232, 388
BspLI GGNNCC 5 cut(s) 334, 384, 562, 563, 564
BspPI GGATC 1 cut(s) 409
BspT107I GGYRCC 1 cut(s) 382
BsrBI CCGCTC 1 cut(s) 317
BssECI CCNNGG 5 cut(s) 230, 259, 309, 336, 386
BssMI GATC 4 cut(s) 114, 184, 279, 401
Bst4CI ACNGT 3 cut(s) 425, 433, 481
BstBAI YACGTR 1 cut(s) 524
BstC8I GCNNGC 1 cut(s) 244
BstDEI CTNAG 3 cut(s) 111, 133, 609
BstDSI CCRYGG 3 cut(s) 230, 336, 386
BstF5I GGATG 2 cut(s) 241, 534
BstFNI CGCG 2 cut(s) 232, 388
BstKTI GATC 4 cut(s) 117, 187, 282, 404
BstMAI GTCTC 2 cut(s) 114, 422
BstMBI GATC 4 cut(s) 114, 184, 279, 401
BstNSI RCATGY 1 cut(s) 412
BstSLI GKGCMC 2 cut(s) 356, 565
BstUI CGCG 2 cut(s) 232, 388
BstV2I GAAGAC 1 cut(s) 573
BstX2I RGATCY 1 cut(s) 184
BstYI RGATCY 1 cut(s) 184
BsuRI GGCC 2 cut(s) 563, 590
BtgI CCRYGG 3 cut(s) 230, 336, 386
BtsCI GGATG 2 cut(s) 241, 534
Cac8I GCNNGC 1 cut(s) 244
Cfr13I GGNCC 3 cut(s) 227, 561, 562
Cfr42I CCGCGG 2 cut(s) 233, 389
Csp6I GTAC 4 cut(s) 172, 383, 493, 521
CviAII CATG 4 cut(s) 283, 328, 409, 550
CviJI RGCY 6 cut(s) 122, 299, 325, 335, 563, 590
CviKI_1 RGCY 6 cut(s) 122, 299, 325, 335, 563, 590
CviQI GTAC 4 cut(s) 172, 383, 493, 521
DdeI CTNAG 3 cut(s) 111, 133, 609
DpnI GATC 4 cut(s) 116, 186, 281, 403
DpnII GATC 4 cut(s) 114, 184, 279, 401
EaeI YGGCCR 1 cut(s) 588
Eco24I GRGCYC 2 cut(s) 327, 565
Eco47I GGWCC 1 cut(s) 227
Eco88I CYCGRG 1 cut(s) 180
EcoO109I RGGNCCY 2 cut(s) 561, 562
EcoRI GAATTC 2 cut(s) 218, 371
EcoT22I ATGCAT 1 cut(s) 31
EcoT38I GRGCYC 2 cut(s) 327, 565
FaeI CATG 4 cut(s) 286, 331, 412, 553
FaqI GGGAC 3 cut(s) 63, 234, 300
FatI CATG 4 cut(s) 282, 327, 408, 549
FauI CCCGC 4 cut(s) 225, 259, 334, 386
FauNDI CATATG 1 cut(s) 472
FokI GGATG 2 cut(s) 248, 541
FriOI GRGCYC 2 cut(s) 327, 565
FspBI CTAG 2 cut(s) 296, 465
HaeIII GGCC 2 cut(s) 563, 590
Hin1II CATG 4 cut(s) 286, 331, 412, 553
HinfI GANTC 3 cut(s) 364, 486, 546
HphI GGTGA 3 cut(s) 60, 298, 413
Hpy166II GTNNAC 3 cut(s) 197, 354, 521
Hpy188I TCNGA 3 cut(s) 114, 401, 406
Hpy188III TCNNGA 3 cut(s) 182, 368, 465
Hpy8I GTNNAC 3 cut(s) 197, 354, 521
Hpy99I CGWCG 2 cut(s) 364, 589
HpyCH4III ACNGT 3 cut(s) 425, 433, 481
HpyCH4IV ACGT 3 cut(s) 174, 461, 523
HpyCH4V TGCA 3 cut(s) 29, 65, 354
HpyF3I CTNAG 3 cut(s) 111, 133, 609
HpySE526I ACGT 3 cut(s) 174, 461, 523
Hsp92II CATG 4 cut(s) 286, 331, 412, 553
KpnI GGTACC 1 cut(s) 386
KspI CCGCGG 2 cut(s) 233, 389
Kzo9I GATC 4 cut(s) 114, 184, 279, 401
LmnI GCTCC 2 cut(s) 314, 332
LpnPI CCDG 1 cut(s) 251
LweI GCATC 2 cut(s) 38, 74
MaeI CTAG 2 cut(s) 296, 465
MaeII ACGT 3 cut(s) 174, 461, 523
MalI GATC 4 cut(s) 116, 186, 281, 403
MbiI CCGCTC 1 cut(s) 317
MboI GATC 4 cut(s) 114, 184, 279, 401
MboII GAAGA 1 cut(s) 573
MfeI CAATTG 2 cut(s) 204, 450
MflI RGATCY 1 cut(s) 184
MhlI GDGCHC 4 cut(s) 327, 356, 540, 565
MluCI AATT 6 cut(s) 8, 140, 204, 218, 371, 450
MlyI GAGTC 1 cut(s) 373
Mph1103I ATGCAT 1 cut(s) 31
MseI TTAA 2 cut(s) 45, 144
MspA1I CMGCKG 2 cut(s) 232, 388
MunI CAATTG 2 cut(s) 204, 450
Mva1269I GAATGC 1 cut(s) 31
MvnI CGCG 2 cut(s) 232, 388
NdeI CATATG 1 cut(s) 472
NdeII GATC 4 cut(s) 114, 184, 279, 401
NlaIII CATG 4 cut(s) 286, 331, 412, 553
NlaIV GGNNCC 5 cut(s) 334, 384, 562, 563, 564
NsiI ATGCAT 1 cut(s) 31
NspI RCATGY 1 cut(s) 412
PaeR7I CTCGAG 1 cut(s) 180
PciI ACATGT 1 cut(s) 408
PcsI WCGNNNNNNNCGW 1 cut(s) 501
PctI GAATGC 1 cut(s) 31
PfeI GAWTC 2 cut(s) 486, 546
PleI GAGTC 1 cut(s) 372
PpsI GAGTC 1 cut(s) 372
Ppu21I YACGTR 1 cut(s) 524
PscI ACATGT 1 cut(s) 408
PspN4I GGNNCC 5 cut(s) 334, 384, 562, 563, 564
PspOMI GGGCCC 1 cut(s) 561
PspPI GGNCC 3 cut(s) 227, 561, 562
PsuI RGATCY 1 cut(s) 184
RsaI GTAC 4 cut(s) 173, 384, 494, 522
RsaNI GTAC 4 cut(s) 172, 383, 493, 521
SacII CCGCGG 2 cut(s) 233, 389
SaqAI TTAA 2 cut(s) 45, 144
Sau3AI GATC 4 cut(s) 114, 184, 279, 401
Sau96I GGNCC 3 cut(s) 227, 561, 562
SchI GAGTC 1 cut(s) 373
SduI GDGCHC 4 cut(s) 327, 356, 540, 565
SetI ASST 6 cut(s) 177, 301, 350, 359, 464, 526
SfaNI GCATC 2 cut(s) 38, 74
Sfr274I CTCGAG 1 cut(s) 180
Sfr303I CCGCGG 2 cut(s) 233, 389
SgrBI CCGCGG 2 cut(s) 233, 389
SinI GGWCC 1 cut(s) 227
SlaI CTCGAG 1 cut(s) 180
SmlI CTYRAG 1 cut(s) 180
SmoI CTYRAG 1 cut(s) 180
Sse9I AATT 6 cut(s) 8, 140, 204, 218, 371, 450
SsiI CCGC 9 cut(s) 230, 232, 252, 317, 341, 386, 388, 393, 571
SspMI CTAG 2 cut(s) 296, 465
TaaI ACNGT 3 cut(s) 425, 433, 481
TaiI ACGT 3 cut(s) 177, 464, 526
TaqI TCGA 3 cut(s) 181, 222, 359
TaqII GACCGA 2 cut(s) 20, 251
TasI AATT 6 cut(s) 8, 140, 204, 218, 371, 450
TfiI GAWTC 2 cut(s) 486, 546
Tru1I TTAA 2 cut(s) 45, 144
Tru9I TTAA 2 cut(s) 45, 144
TspDTI ATGAA 2 cut(s) 38, 538
VneI GTGCAC 1 cut(s) 352
VpaK11BI GGWCC 1 cut(s) 227
XapI RAATTY 3 cut(s) 140, 218, 371
XbaI TCTAGA 1 cut(s) 464
XceI RCATGY 1 cut(s) 412
XhoI CTCGAG 1 cut(s) 180
XspI CTAG 2 cut(s) 296, 465
Zsp2I ATGCAT 1 cut(s) 31
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.