Rroxscaffold_5G00340330

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000254
Physical Location & Seq
Forward (+)
8769640 .. 8769879
240 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00340330.1

Sequence Viewer

Length: 240 bp
ATGCTGAAGCTTGGGGGTTATTTCATGGTCTCAAAAGTGGCTCAGAGTTGCAATGTTGCTAAGCTTGTGATCGAGTCGGATTCTGCAATTCTGGTCAACCTGATTCAAAGTACCTACTTTGATTGCCATCCTCTGGGTTCTCTTATTGCTTGTTGTCTCAGATTGATTGCTACTTTTGAAGAAGCCTCTTTGCATCACATTTACAGGGAGTGCAATATGACTGCAGATGCATTAGCATGA
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

79

Amino Acids

8.67

Weight (kDa)

5.79

Isoelectric Point (pI)

63.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 12 - 79 1.2e-11 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
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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)
AccB7I CCANNNNNTGG 1 cut(s) 133
AcuI CTGAAG 1 cut(s) 26
AfaI GTAC 1 cut(s) 112
AfiI CCNNNNNNNGG 1 cut(s) 133
AgsI TTSAA 2 cut(s) 107, 179
AluBI AGCT 2 cut(s) 10, 64
AluI AGCT 2 cut(s) 10, 64
Alw26I GTCTC 2 cut(s) 34, 161
BccI CCATC 1 cut(s) 135
BcoDI GTCTC 2 cut(s) 34, 161
BfmI CTRYAG 1 cut(s) 222
BlpI GCTNAGC 1 cut(s) 60
BmsI GCATC 2 cut(s) 202, 217
Bpu1102I GCTNAGC 1 cut(s) 60
BsaBI GATNNNNATC 1 cut(s) 126
BsaI GGTCTC 1 cut(s) 34
Bsc4I CCNNNNNNNGG 1 cut(s) 133
Bse3DI GCAATG 1 cut(s) 58
Bse8I GATNNNNATC 1 cut(s) 126
BseGI GGATG 1 cut(s) 127
BseJI GATNNNNATC 1 cut(s) 126
BseLI CCNNNNNNNGG 1 cut(s) 133
BseMI GCAATG 1 cut(s) 58
BseMII CTCAG 2 cut(s) 56, 172
BslI CCNNNNNNNGG 1 cut(s) 133
BsmAI GTCTC 2 cut(s) 34, 161
Bso31I GGTCTC 1 cut(s) 34
Bsp143I GATC 1 cut(s) 69
Bsp1720I GCTNAGC 1 cut(s) 60
BspCNI CTCAG 2 cut(s) 55, 171
BspMAI CTGCAG 1 cut(s) 226
BspTNI GGTCTC 1 cut(s) 34
BsrDI GCAATG 1 cut(s) 58
BssMI GATC 1 cut(s) 69
BstDEI CTNAG 3 cut(s) 42, 60, 158
BstF5I GGATG 1 cut(s) 127
BstKTI GATC 1 cut(s) 72
BstMAI GTCTC 2 cut(s) 34, 161
BstMBI GATC 1 cut(s) 69
BstSFI CTRYAG 1 cut(s) 222
BtsCI GGATG 1 cut(s) 127
Csp6I GTAC 1 cut(s) 111
CviAII CATG 2 cut(s) 25, 237
CviJI RGCY 4 cut(s) 10, 41, 64, 185
CviKI_1 RGCY 4 cut(s) 10, 41, 64, 185
CviQI GTAC 1 cut(s) 111
DdeI CTNAG 3 cut(s) 42, 60, 158
DpnI GATC 1 cut(s) 71
DpnII GATC 1 cut(s) 69
Eco31I GGTCTC 1 cut(s) 34
Eco57I CTGAAG 1 cut(s) 26
EcoT22I ATGCAT 1 cut(s) 232
FaeI CATG 2 cut(s) 28, 240
FaiI YATR 3 cut(s) 26, 218, 238
FatI CATG 2 cut(s) 24, 236
FokI GGATG 1 cut(s) 114
Hin1II CATG 2 cut(s) 28, 240
HincII GTYRAC 1 cut(s) 97
HindII GTYRAC 1 cut(s) 97
HindIII AAGCTT 2 cut(s) 8, 62
HinfI GANTC 3 cut(s) 74, 80, 103
Hpy166II GTNNAC 1 cut(s) 97
Hpy188I TCNGA 3 cut(s) 45, 79, 161
Hpy8I GTNNAC 1 cut(s) 97
HpyCH4V TGCA 6 cut(s) 51, 86, 193, 213, 224, 230
HpyF3I CTNAG 3 cut(s) 42, 60, 158
Hsp92II CATG 2 cut(s) 28, 240
Kzo9I GATC 1 cut(s) 69
LpnPI CCDG 4 cut(s) 77, 113, 119, 190
LweI GCATC 2 cut(s) 202, 217
MalI GATC 1 cut(s) 71
MboI GATC 1 cut(s) 69
MboII GAAGA 1 cut(s) 191
MluCI AATT 1 cut(s) 87
MlyI GAGTC 1 cut(s) 83
MmeI TCCRAC 1 cut(s) 57
MnlI CCTC 2 cut(s) 141, 196
Mph1103I ATGCAT 1 cut(s) 232
MslI CAYNNNNRTG 1 cut(s) 235
NdeII GATC 1 cut(s) 69
NlaIII CATG 2 cut(s) 28, 240
NsiI ATGCAT 1 cut(s) 232
PfeI GAWTC 2 cut(s) 80, 103
PflMI CCANNNNNTGG 1 cut(s) 133
PleI GAGTC 1 cut(s) 82
PpsI GAGTC 1 cut(s) 82
PstI CTGCAG 1 cut(s) 226
RsaI GTAC 1 cut(s) 112
RsaNI GTAC 1 cut(s) 111
RseI CAYNNNNRTG 1 cut(s) 235
Sau3AI GATC 1 cut(s) 69
SchI GAGTC 1 cut(s) 83
SetI ASST 4 cut(s) 12, 66, 102, 116
SfaNI GCATC 2 cut(s) 202, 217
SfcI CTRYAG 1 cut(s) 222
SgeI CNNG 9 cut(s) 23, 37, 77, 85, 104, 112, 146, 162, 217
SmiMI CAYNNNNRTG 1 cut(s) 235
Sse9I AATT 1 cut(s) 87
TaqI TCGA 1 cut(s) 72
TasI AATT 1 cut(s) 87
TfiI GAWTC 2 cut(s) 80, 103
TspDTI ATGAA 1 cut(s) 13
Van91I CCANNNNNTGG 1 cut(s) 133
Zsp2I ATGCAT 1 cut(s) 232
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.