Rroxscaffold_1G00026250

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000254
Physical Location & Seq
Reverse (-)
33059776 .. 33062681
2906 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00026250.1

Sequence Viewer

Length: 372 bp
ATGGGTGCCCAAACTATGGCCAATGTTACTGATATGTATAGCTACACTATGCTTTGTTGGTTAAAGCCTTCTGAGAATTTTTATAAGCTGAATATTGATGGTACTAGAGTTTCTCCTTCTGGAAGAATTGGTGCTGGTGGGGTCATTAGGGATCAGCTTGGGTTATGGATTATTGGTATCCAAATTAACCTTGGTTCTGGTGAAATTCTGGAGGCTGAAGCCTGGGGCCTTTACTATGGCCTAAAATTGGCTACTGAACACCATAGTACAAACCTTGAGATTGAATCCGATTCTGCCATTTTGGTCCAGTTGATGCAAATGCCTGATCTCTCTCTCCATCCTCTGGGATCCCTTCTCAATGGATGCAATTAA
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
RVT_3 zf-RVT

Protein Analysis

123

Amino Acids

13.44

Weight (kDa)

4.76

Isoelectric Point (pI)

36.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 31 - 106 5.2e-13 Reverse transcriptase-like
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: OG0000254)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g25671 FvH4_1g29782 FvH4_2g06731 FvH4_2g09413 FvH4_2g12061 FvH4_2g12671 FvH4_2g14202 FvH4_3g27901 FvH4_3g30492 FvH4_3g36953 FvH4_4g10141 FvH4_4g11162 FvH4_5g27995 FvH4_5g34262 FvH4_6g10681 FvH4_6g13733 FvH4_6g18164 FvH4_6g25491 FvH4_6g25791 FvH4_6g27023 FvH4_6g34321 FvH4_7g05070
pyrus_communis pycom04g06850
rosa_chinensis RchiOBHm_Chr1g0322281 RchiOBHm_Chr1g0334981 RchiOBHm_Chr1g0371181 RchiOBHm_Chr2g0125461 RchiOBHm_Chr2g0127141 RchiOBHm_Chr2g0128961 RchiOBHm_Chr2g0132921 RchiOBHm_Chr3g0486471 RchiOBHm_Chr3g0492911 RchiOBHm_Chr4g0412131 RchiOBHm_Chr4g0426941 RchiOBHm_Chr4g0437331 RchiOBHm_Chr5g0018821 RchiOBHm_Chr5g0040021 RchiOBHm_Chr5g0051041 RchiOBHm_Chr6g0266871 RchiOBHm_Chr6g0271761 RchiOBHm_Chr7g0200931 RchiOBHm_Chr7g0220091
rosa_multiflora Rmu_co7991344.1_g000001 Rmu_sc0000172.1_g000008 Rmu_sc0000194.1_g000010 Rmu_sc0000446.1_g000026 Rmu_sc0000496.1_g000011 Rmu_sc0000530.1_g000013 Rmu_sc0000706.1_g000044 Rmu_sc0000745.1_g000029 Rmu_sc0001301.1_g000027 Rmu_sc0001520.1_g000008 Rmu_sc0001966.1_g000025 Rmu_sc0001989.1_g000007 Rmu_sc0002239.1_g000002 Rmu_sc0002816.1_g000004 Rmu_sc0003458.1_g000001 Rmu_sc0003825.1_g000031 Rmu_sc0003919.1_g000002 Rmu_sc0004053.1_g000007 Rmu_sc0004161.1_g000008 Rmu_sc0004368.1_g000033 Rmu_sc0004383.1_g000002 Rmu_sc0004923.1_g000002 Rmu_sc0005065.1_g000001 Rmu_sc0005478.1_g000001 Rmu_sc0006847.1_g000031 Rmu_sc0009556.1_g000002 Rmu_sc0010783.1_g000007 Rmu_sc0011424.1_g000022 Rmu_sc0013205.1_g000002 Rmu_sc0017407.1_g000001 Rmu_sc0023757.1_g000002 Rmu_sc0032346.1_g000001 Rmu_ssc0000008.1_g000014 Rmu_ssc0000158.1_g000033 Rmu_ssc0000217.1_g000028
rosa_roxburghii Rroxscaffold_1G00000480 Rroxscaffold_1G00026050 Rroxscaffold_1G00026250 Rroxscaffold_2G00085120 Rroxscaffold_2G00119710 Rroxscaffold_2G00126610 Rroxscaffold_2G00129340 Rroxscaffold_3G00245550 Rroxscaffold_5G00340210 Rroxscaffold_5G00340330 Rroxscaffold_6G00397180 Rroxscaffold_7G00216160
rosa_rugosa Rorug01G0040000 Rorug01G0067400 Rorug01G0092300 Rorug01G0197000 Rorug01G0474200 Rorug01G0482500 Rorug01G0489300 Rorug02G0142900 Rorug02G0259000 Rorug02G0283200 Rorug02G0341400 Rorug02G0341600 Rorug02G0370900 Rorug02G0379700 Rorug02G0386100 Rorug02G0387300 Rorug03G0112600 Rorug03G0265600 Rorug03G0298800 Rorug04G0019500 Rorug05G0069900 Rorug05G0070500 Rorug05G0256800 Rorug05G0287300 Rorug05G0592000 Rorug06G0057800 Rorug06G0082000 Rorug06G0118900 Rorug06G0176500 Rorug06G0423100 Rorug07G0050100 Rorug07G0095100 Rorug07G0202100 Rorug07G0216600 Rorug07G0244300 Rorug07G0245500
rosa_samantha Rh1DG154800 Rh2CG613000 Rh6BG016600 Rh6BG475100 Rh6CG013200 Rh7AG443800
rosa_wichuraiana Rw0G021840 Rw4G023650

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 84
AccB1I GGYRCC 1 cut(s) 5
AccB7I CCANNNNNTGG 2 cut(s) 16, 343
AclWI GGATC 3 cut(s) 159, 342, 355
AcoI YGGCCR 1 cut(s) 18
AcsI RAATTY 2 cut(s) 76, 204
AcuI CTGAAG 1 cut(s) 237
AfaI GTAC 2 cut(s) 103, 268
AfiI CCNNNNNNNGG 3 cut(s) 16, 247, 343
AgsI TTSAA 1 cut(s) 284
AjnI CCWGG 1 cut(s) 221
AluBI AGCT 3 cut(s) 42, 88, 157
AluI AGCT 3 cut(s) 42, 88, 157
AlwI GGATC 3 cut(s) 159, 342, 355
AoxI GGCC 3 cut(s) 18, 226, 238
ApoI RAATTY 2 cut(s) 76, 204
AspS9I GGNCC 2 cut(s) 226, 304
AsuHPI GGTGA 1 cut(s) 212
AvaII GGWCC 1 cut(s) 304
BaeGI GKGCMC 1 cut(s) 10
BaeI ACNNNNGTAYC 2 cut(s) 93, 126
BalI TGGCCA 1 cut(s) 20
BamHI GGATCC 1 cut(s) 347
BanI GGYRCC 1 cut(s) 5
BccI CCATC 2 cut(s) 92, 345
BciT130I CCWGG 1 cut(s) 223
BciVI GTATCC 1 cut(s) 188
BfaI CTAG 1 cut(s) 105
BfuI GTATCC 1 cut(s) 188
Bme1390I CCNGG 1 cut(s) 223
Bme18I GGWCC 1 cut(s) 304
BmgT120I GGNCC 2 cut(s) 226, 304
BmiI GGNNCC 3 cut(s) 7, 227, 349
BmrFI CCNGG 1 cut(s) 223
BmsI GCATC 2 cut(s) 303, 353
BpmI CTGGAG 1 cut(s) 230
BpuEI CTTGAG 1 cut(s) 296
BsaJI CCNNGG 2 cut(s) 190, 222
Bsc4I CCNNNNNNNGG 3 cut(s) 16, 247, 343
Bse1I ACTGG 1 cut(s) 307
BseBI CCWGG 1 cut(s) 223
BseDI CCNNGG 2 cut(s) 190, 222
BseGI GGATG 2 cut(s) 337, 368
BseLI CCNNNNNNNGG 3 cut(s) 16, 247, 343
BseMII CTCAG 1 cut(s) 63
BseNI ACTGG 1 cut(s) 307
BseSI GKGCMC 1 cut(s) 10
BshFI GGCC 3 cut(s) 20, 228, 240
BshNI GGYRCC 1 cut(s) 5
BslI CCNNNNNNNGG 3 cut(s) 16, 247, 343
BsnI GGCC 3 cut(s) 20, 228, 240
Bsp1286I GDGCHC 1 cut(s) 10
Bsp143I GATC 3 cut(s) 151, 325, 347
BspANI GGCC 3 cut(s) 20, 228, 240
BspCNI CTCAG 1 cut(s) 64
BspLI GGNNCC 3 cut(s) 7, 227, 349
BspPI GGATC 3 cut(s) 159, 342, 355
BspT107I GGYRCC 1 cut(s) 5
BsrI ACTGG 1 cut(s) 307
BssECI CCNNGG 2 cut(s) 190, 222
BssMI GATC 3 cut(s) 151, 325, 347
BssT1I CCWWGG 1 cut(s) 190
Bst2UI CCWGG 1 cut(s) 223
BstDEI CTNAG 1 cut(s) 72
BstF5I GGATG 2 cut(s) 337, 368
BstKTI GATC 3 cut(s) 154, 328, 350
BstMBI GATC 3 cut(s) 151, 325, 347
BstNI CCWGG 1 cut(s) 223
BstSCI CCNGG 1 cut(s) 221
BstSLI GKGCMC 1 cut(s) 10
BstX2I RGATCY 1 cut(s) 347
BstYI RGATCY 1 cut(s) 347
BsuI GTATCC 1 cut(s) 188
BsuRI GGCC 3 cut(s) 20, 228, 240
BtsCI GGATG 2 cut(s) 337, 368
Cfr13I GGNCC 2 cut(s) 226, 304
Csp6I GTAC 2 cut(s) 102, 267
CviQI GTAC 2 cut(s) 102, 267
DdeI CTNAG 1 cut(s) 72
DpnI GATC 3 cut(s) 153, 327, 349
DpnII GATC 3 cut(s) 151, 325, 347
EaeI YGGCCR 1 cut(s) 18
Eco130I CCWWGG 1 cut(s) 190
Eco47I GGWCC 1 cut(s) 304
Eco57I CTGAAG 1 cut(s) 237
EcoO109I RGGNCCY 1 cut(s) 226
EcoRII CCWGG 1 cut(s) 221
EcoT14I CCWWGG 1 cut(s) 190
ErhI CCWWGG 1 cut(s) 190
FaiI YATR 8 cut(s) 17, 35, 39, 50, 84, 166, 237, 264
FokI GGATG 1 cut(s) 324
FspBI CTAG 1 cut(s) 105
GsuI CTGGAG 1 cut(s) 230
HaeIII GGCC 3 cut(s) 20, 228, 240
HinfI GANTC 2 cut(s) 284, 290
HphI GGTGA 1 cut(s) 212
Hpy188I TCNGA 2 cut(s) 73, 289
Hpy188III TCNNGA 2 cut(s) 120, 209
HpyAV CCTTC 3 cut(s) 78, 126, 362
HpyCH4V TGCA 2 cut(s) 316, 366
HpyF3I CTNAG 1 cut(s) 72
Kzo9I GATC 3 cut(s) 151, 325, 347
LpnPI CCDG 9 cut(s) 105, 120, 183, 194, 208, 235, 320, 329, 336
LweI GCATC 2 cut(s) 303, 353
MaeI CTAG 1 cut(s) 105
MaeIII GTNAC 1 cut(s) 25
MalI GATC 3 cut(s) 153, 327, 349
MboI GATC 3 cut(s) 151, 325, 347
MboII GAAGA 1 cut(s) 135
MflI RGATCY 1 cut(s) 347
MhlI GDGCHC 1 cut(s) 10
MlsI TGGCCA 1 cut(s) 20
MluCI AATT 6 cut(s) 76, 126, 183, 204, 245, 367
MluNI TGGCCA 1 cut(s) 20
MnlI CCTC 2 cut(s) 205, 351
Mox20I TGGCCA 1 cut(s) 20
MscI TGGCCA 1 cut(s) 20
MseI TTAA 3 cut(s) 62, 186, 370
Msp20I TGGCCA 1 cut(s) 20
MspR9I CCNGG 1 cut(s) 223
MvaI CCWGG 1 cut(s) 223
NdeII GATC 3 cut(s) 151, 325, 347
NlaIV GGNNCC 3 cut(s) 7, 227, 349
PfeI GAWTC 2 cut(s) 284, 290
PflMI CCANNNNNTGG 2 cut(s) 16, 343
PsiI TTATAA 1 cut(s) 84
Psp6I CCWGG 1 cut(s) 221
PspGI CCWGG 1 cut(s) 221
PspN4I GGNNCC 3 cut(s) 7, 227, 349
PspPI GGNCC 2 cut(s) 226, 304
PsuI RGATCY 1 cut(s) 347
RsaI GTAC 2 cut(s) 103, 268
RsaNI GTAC 2 cut(s) 102, 267
SaqAI TTAA 3 cut(s) 62, 186, 370
Sau3AI GATC 3 cut(s) 151, 325, 347
Sau96I GGNCC 2 cut(s) 226, 304
ScrFI CCNGG 1 cut(s) 223
SduI GDGCHC 1 cut(s) 10
SetI ASST 5 cut(s) 44, 90, 159, 192, 276
SfaNI GCATC 2 cut(s) 303, 353
SinI GGWCC 1 cut(s) 304
SmlI CTYRAG 1 cut(s) 275
SmoI CTYRAG 1 cut(s) 275
Sse9I AATT 6 cut(s) 76, 126, 183, 204, 245, 367
SspI AATATT 1 cut(s) 94
SspMI CTAG 1 cut(s) 105
StyD4I CCNGG 1 cut(s) 221
StyI CCWWGG 1 cut(s) 190
TasI AATT 6 cut(s) 76, 126, 183, 204, 245, 367
TatI WGTACW 1 cut(s) 266
TfiI GAWTC 2 cut(s) 284, 290
Tru1I TTAA 3 cut(s) 62, 186, 370
Tru9I TTAA 3 cut(s) 62, 186, 370
Van91I CCANNNNNTGG 2 cut(s) 16, 343
VpaK11BI GGWCC 1 cut(s) 304
XapI RAATTY 2 cut(s) 76, 204
XcmI CCANNNNNNNNNTGG 1 cut(s) 188
XspI CTAG 1 cut(s) 105
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.