Rroxscaffold_4G00312010

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000842
Physical Location & Seq
Reverse (-)
34694240 .. 34695791
1552 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00312010.1

Sequence Viewer

Length: 321 bp
ATGGTATTAACACTTGTGATATTGCTTCCTTCGATCCCTGGTTTCTCTCCTGGTTTCGGAAAGGGCTACCATAAAGTGGACACCGAGAATTTGATCGTTTTTTGTTGGAAAATTTGGGAAGCTCAAAATAACCTAATTTTCGACAAAGAGCGGCCTCCCCTTTATGGTTGTTCATGCGGCTGCTACCATGGAAGCTGTTTTCGAGACAACAATCCAGTGAAGGATTCTTCTACCCCCAGTCACTATGGTATTATCAAGTGGACTCCTCCTCCTCCAGGAGTTTTCAAACTAAACTTCGATGGCTTAGTCCCGAGACAATAA
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_1 RVT_3 zf-RVT

Protein Analysis

106

Amino Acids

11.91

Weight (kDa)

8.31

Isoelectric Point (pI)

41.52

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 76
AccBSI CCGCTC 1 cut(s) 151
AciI CCGC 2 cut(s) 151, 177
AclWI GGATC 1 cut(s) 28
AcsI RAATTY 2 cut(s) 88, 111
AfiI CCNNNNNNNGG 4 cut(s) 56, 76, 164, 275
AgsI TTSAA 1 cut(s) 286
AjnI CCWGG 3 cut(s) 37, 49, 274
AluBI AGCT 2 cut(s) 122, 195
AluI AGCT 2 cut(s) 122, 195
Alw26I GTCTC 2 cut(s) 198, 307
AlwI GGATC 1 cut(s) 28
Ama87I CYCGRG 1 cut(s) 310
AoxI GGCC 1 cut(s) 152
ApeKI GCWGC 1 cut(s) 180
ApoI RAATTY 2 cut(s) 88, 111
AvaI CYCGRG 1 cut(s) 310
BbvI GCAGC 1 cut(s) 167
BccI CCATC 1 cut(s) 293
BciT130I CCWGG 3 cut(s) 39, 51, 276
BcoDI GTCTC 2 cut(s) 198, 307
BisI GCNGC 3 cut(s) 152, 178, 181
BlsI GCNGC 3 cut(s) 153, 179, 182
Bme1390I CCNGG 3 cut(s) 39, 51, 276
BmeT110I CYCGRG 1 cut(s) 310
BmrFI CCNGG 3 cut(s) 39, 51, 276
BmrI ACTGGG 1 cut(s) 231
BmuI ACTGGG 1 cut(s) 231
BpmI CTGGAG 1 cut(s) 258
BsaJI CCNNGG 2 cut(s) 37, 187
BsaXI ACNNNNNCTCC 2 cut(s) 253, 283
Bsc4I CCNNNNNNNGG 4 cut(s) 56, 76, 164, 275
Bse1I ACTGG 2 cut(s) 215, 237
BseBI CCWGG 3 cut(s) 39, 51, 276
BseDI CCNNGG 2 cut(s) 37, 187
BseLI CCNNNNNNNGG 4 cut(s) 56, 76, 164, 275
BseNI ACTGG 2 cut(s) 215, 237
BseRI GAGGAG 3 cut(s) 255, 258, 261
BseXI GCAGC 1 cut(s) 167
BshFI GGCC 1 cut(s) 154
BsiHKCI CYCGRG 1 cut(s) 310
BslFI GGGAC 1 cut(s) 293
BslI CCNNNNNNNGG 4 cut(s) 56, 76, 164, 275
BsmAI GTCTC 2 cut(s) 198, 307
BsmFI GGGAC 1 cut(s) 293
BsnI GGCC 1 cut(s) 154
BsoBI CYCGRG 1 cut(s) 310
Bsp143I GATC 2 cut(s) 33, 93
Bsp19I CCATGG 1 cut(s) 187
BspACI CCGC 2 cut(s) 151, 177
BspANI GGCC 1 cut(s) 154
BspPI GGATC 1 cut(s) 28
BsrBI CCGCTC 1 cut(s) 151
BsrI ACTGG 2 cut(s) 215, 237
BssECI CCNNGG 2 cut(s) 37, 187
BssMI GATC 2 cut(s) 33, 93
BssT1I CCWWGG 1 cut(s) 187
Bst2UI CCWGG 3 cut(s) 39, 51, 276
BstDEI CTNAG 1 cut(s) 304
BstDSI CCRYGG 1 cut(s) 187
BstENI CCTNNNNNAGG 1 cut(s) 273
BstKTI GATC 2 cut(s) 36, 96
BstMAI GTCTC 2 cut(s) 198, 307
BstMBI GATC 2 cut(s) 33, 93
BstNI CCWGG 3 cut(s) 39, 51, 276
BstSCI CCNGG 3 cut(s) 37, 49, 274
BstV1I GCAGC 1 cut(s) 167
BsuRI GGCC 1 cut(s) 154
BtgI CCRYGG 1 cut(s) 187
BtsIMutI CAGTG 1 cut(s) 222
CviAII CATG 2 cut(s) 174, 188
CviJI RGCY 6 cut(s) 66, 122, 154, 180, 195, 303
CviKI_1 RGCY 6 cut(s) 66, 122, 154, 180, 195, 303
DdeI CTNAG 1 cut(s) 304
DpnI GATC 2 cut(s) 35, 95
DpnII GATC 2 cut(s) 33, 93
Eco130I CCWWGG 1 cut(s) 187
Eco88I CYCGRG 1 cut(s) 310
EcoNI CCTNNNNNAGG 1 cut(s) 273
EcoRII CCWGG 3 cut(s) 37, 49, 274
EcoT14I CCWWGG 1 cut(s) 187
ErhI CCWWGG 1 cut(s) 187
FaeI CATG 2 cut(s) 177, 191
FaiI YATR 5 cut(s) 72, 165, 175, 189, 246
FaqI GGGAC 1 cut(s) 293
FatI CATG 2 cut(s) 173, 187
Fnu4HI GCNGC 3 cut(s) 152, 178, 181
Fsp4HI GCNGC 3 cut(s) 152, 178, 181
GluI GCNGC 3 cut(s) 152, 178, 181
GsuI CTGGAG 1 cut(s) 258
HaeIII GGCC 1 cut(s) 154
Hin1II CATG 2 cut(s) 177, 191
HinfI GANTC 2 cut(s) 224, 262
Hpy166II GTNNAC 2 cut(s) 79, 261
Hpy188I TCNGA 1 cut(s) 59
Hpy188III TCNNGA 2 cut(s) 203, 310
Hpy8I GTNNAC 2 cut(s) 79, 261
HpyAV CCTTC 2 cut(s) 39, 214
HpyF3I CTNAG 1 cut(s) 304
Hsp92II CATG 2 cut(s) 177, 191
Kzo9I GATC 2 cut(s) 33, 93
LpnPI CCDG 8 cut(s) 24, 36, 51, 63, 228, 250, 261, 288
Lsp1109I GCAGC 1 cut(s) 167
MaeIII GTNAC 1 cut(s) 239
MalI GATC 2 cut(s) 35, 95
MbiI CCGCTC 1 cut(s) 151
MboI GATC 2 cut(s) 33, 93
MboII GAAGA 1 cut(s) 219
MluCI AATT 3 cut(s) 88, 111, 135
MlyI GAGTC 1 cut(s) 256
MmeI TCCRAC 1 cut(s) 86
MnlI CCTC 4 cut(s) 165, 276, 279, 282
MseI TTAA 1 cut(s) 8
MspR9I CCNGG 3 cut(s) 39, 51, 276
MvaI CCWGG 3 cut(s) 39, 51, 276
NcoI CCATGG 1 cut(s) 187
NdeII GATC 2 cut(s) 33, 93
NlaIII CATG 2 cut(s) 177, 191
NmuCI GTSAC 1 cut(s) 239
PfeI GAWTC 1 cut(s) 224
PflMI CCANNNNNTGG 1 cut(s) 76
PfoI TCCNGGA 1 cut(s) 274
PkrI GCNGC 3 cut(s) 153, 179, 182
PleI GAGTC 1 cut(s) 256
PpsI GAGTC 1 cut(s) 256
Psp6I CCWGG 3 cut(s) 37, 49, 274
PspGI CCWGG 3 cut(s) 37, 49, 274
SaqAI TTAA 1 cut(s) 8
SatI GCNGC 3 cut(s) 152, 178, 181
Sau3AI GATC 2 cut(s) 33, 93
SchI GAGTC 1 cut(s) 256
ScrFI CCNGG 3 cut(s) 39, 51, 276
SetI ASST 3 cut(s) 124, 135, 197
Sse9I AATT 3 cut(s) 88, 111, 135
SsiI CCGC 2 cut(s) 151, 177
StyD4I CCNGG 3 cut(s) 37, 49, 274
StyI CCWWGG 1 cut(s) 187
TaqI TCGA 4 cut(s) 32, 141, 202, 297
TasI AATT 3 cut(s) 88, 111, 135
TauI GCSGC 2 cut(s) 154, 180
TfiI GAWTC 1 cut(s) 224
Tru1I TTAA 1 cut(s) 8
Tru9I TTAA 1 cut(s) 8
TscAI CASTG 1 cut(s) 222
TseFI GTSAC 1 cut(s) 239
TseI GCWGC 1 cut(s) 180
Tsp45I GTSAC 1 cut(s) 239
TspDTI ATGAA 1 cut(s) 162
TspRI CASTG 1 cut(s) 222
Van91I CCANNNNNTGG 1 cut(s) 76
XagI CCTNNNNNAGG 1 cut(s) 273
XapI RAATTY 2 cut(s) 88, 111
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.