Rmu_sc0003542.1_g000011

ribonuclease H protein At1g65750

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003542.1
OG0000842
Physical Location & Seq
Forward (+)
46401 .. 47111
711 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003542.1_g000011.1.cds

Sequence Viewer

Length: 711 bp
atgagctgggactttgggttcagaagaaacttaaatgatcaagagattgaggagtttgcctcactgatggttaaactagaaaatgtccgattagtggagtccaaaccagatgaaaggagatggaagcttgagcctaatgggaaattctcttgtaaatccttccattgcttcttaattagtggtggatcagttccaatttttgctcctgcgaagtttatttggaaggtcaaggtccctactaaggtgaagattttgggatggcttgtggtactggggaagacgaatacatgtgatgttcttcaaaggagaagaccgggaagttgtttttctcctcactggtgcattttatgcaaagctcaaggggaaagtgctgatcatgtcttctttcatttcttatggaaaaaattatttagggaggcaagagtggactggacaactccattagagagaagtgacttactaagagaaaccatagcgtttgttaaaggtaaaaaggccagaaccctttggggttgtggggtgctagctgtagtttgggtggtctggatggaaagaaataaaagattatttgaaaactatggaggggtggagaaggaagacctgtgggagagagacaagttctgggcatccttatgggtttctatttctaaggaattcaaggattataatctttcttccattatacttaactggcaagcagctgtggtataa
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 RVT_1 RVT_3 zf-RVT

Protein Analysis

236

Amino Acids

27.71

Weight (kDa)

9.41

Isoelectric Point (pI)

46.34

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)
AanI TTATAA 1 cut(s) 666
AclWI GGATC 1 cut(s) 193
AcsI RAATTY 2 cut(s) 143, 653
AfaI GTAC 1 cut(s) 270
AfiI CCNNNNNNNGG 2 cut(s) 94, 241
AflIII ACRYGT 1 cut(s) 287
AgsI TTSAA 3 cut(s) 302, 572, 658
AloI GAACNNNNNNTCC 1 cut(s) 34
AluBI AGCT 5 cut(s) 6, 127, 356, 527, 701
AluI AGCT 5 cut(s) 6, 127, 356, 527, 701
Alw26I GTCTC 1 cut(s) 606
AlwI GGATC 1 cut(s) 193
AoxI GGCC 1 cut(s) 495
ApeKI GCWGC 1 cut(s) 698
ApoI RAATTY 2 cut(s) 143, 653
AspS9I GGNCC 1 cut(s) 232
AsuC2I CCSGG 1 cut(s) 315
AsuHPI GGTGA 1 cut(s) 256
AsuNHI GCTAGC 1 cut(s) 523
AvaII GGWCC 1 cut(s) 232
BbsI GAAGAC 4 cut(s) 284, 316, 373, 603
BccI CCATC 4 cut(s) 61, 114, 252, 541
BclI TGATCA 2 cut(s) 37, 373
BcnI CCSGG 1 cut(s) 315
BcoDI GTCTC 1 cut(s) 606
BfaI CTAG 2 cut(s) 77, 524
BfmI CTRYAG 1 cut(s) 528
BisI GCNGC 1 cut(s) 699
BlsI GCNGC 1 cut(s) 700
Bme1390I CCNGG 1 cut(s) 315
Bme18I GGWCC 1 cut(s) 232
BmgT120I GGNCC 1 cut(s) 232
BmiI GGNNCC 1 cut(s) 234
BmrFI CCNGG 1 cut(s) 315
BmrI ACTGGG 1 cut(s) 281
BmsI GCATC 1 cut(s) 635
BmtI GCTAGC 1 cut(s) 527
BmuI ACTGGG 1 cut(s) 281
BpiI GAAGAC 4 cut(s) 284, 316, 373, 603
BplI GAGNNNNNCTC 2 cut(s) 44, 76
BpuEI CTTGAG 2 cut(s) 149, 342
BpuMI CCSGG 1 cut(s) 315
BsaBI GATNNNNATC 1 cut(s) 666
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 241
Bse1I ACTGG 4 cut(s) 276, 341, 434, 695
Bse3DI GCAATG 1 cut(s) 163
Bse8I GATNNNNATC 1 cut(s) 666
BseGI GGATG 3 cut(s) 263, 552, 626
BseJI GATNNNNATC 1 cut(s) 666
BseLI CCNNNNNNNGG 2 cut(s) 94, 241
BseMI GCAATG 1 cut(s) 163
BseNI ACTGG 4 cut(s) 276, 341, 434, 695
BseRI GAGGAG 2 cut(s) 65, 321
BseYI CCCAGC 1 cut(s) 6
BshFI GGCC 1 cut(s) 497
BsiSI CCGG 1 cut(s) 314
BslFI GGGAC 2 cut(s) 23, 218
BslI CCNNNNNNNGG 2 cut(s) 94, 241
BsmAI GTCTC 1 cut(s) 606
BsmFI GGGAC 2 cut(s) 23, 218
BsnI GGCC 1 cut(s) 497
Bsp143I GATC 3 cut(s) 37, 185, 373
BspANI GGCC 1 cut(s) 497
BspLI GGNNCC 1 cut(s) 234
BspOI GCTAGC 1 cut(s) 527
BspPI GGATC 1 cut(s) 193
BsrDI GCAATG 1 cut(s) 163
BsrI ACTGG 4 cut(s) 276, 341, 434, 695
BssMI GATC 3 cut(s) 37, 185, 373
BstAPI GCANNNNNTGC 1 cut(s) 348
BstC8I GCNNGC 2 cut(s) 525, 696
BstDEI CTNAG 3 cut(s) 240, 461, 648
BstF5I GGATG 3 cut(s) 263, 552, 626
BstKTI GATC 3 cut(s) 40, 188, 376
BstMAI GTCTC 1 cut(s) 606
BstMBI GATC 3 cut(s) 37, 185, 373
BstMWI GCNNNNNNNGC 1 cut(s) 348
BstNSI RCATGY 1 cut(s) 291
BstSCI CCNGG 1 cut(s) 313
BstSFI CTRYAG 1 cut(s) 528
BstV2I GAAGAC 4 cut(s) 284, 316, 373, 603
BsuRI GGCC 1 cut(s) 497
BtsCI GGATG 3 cut(s) 263, 552, 626
BtsIMutI CAGTG 2 cut(s) 62, 334
Cac8I GCNNGC 2 cut(s) 525, 696
Cfr13I GGNCC 1 cut(s) 232
Csp6I GTAC 1 cut(s) 269
CviAII CATG 2 cut(s) 288, 377
CviJI RGCY 8 cut(s) 6, 127, 133, 262, 356, 497, 527, 701
CviKI_1 RGCY 8 cut(s) 6, 127, 133, 262, 356, 497, 527, 701
CviQI GTAC 1 cut(s) 269
DdeI CTNAG 3 cut(s) 240, 461, 648
DpnI GATC 3 cut(s) 39, 187, 375
DpnII GATC 3 cut(s) 37, 185, 373
Eco47I GGWCC 1 cut(s) 232
EcoO109I RGGNCCY 1 cut(s) 232
EcoRI GAATTC 1 cut(s) 653
FaeI CATG 2 cut(s) 291, 380
FaqI GGGAC 2 cut(s) 23, 218
FatI CATG 2 cut(s) 287, 376
FbaI TGATCA 2 cut(s) 37, 373
Fnu4HI GCNGC 1 cut(s) 699
FokI GGATG 3 cut(s) 270, 559, 613
Fsp4HI GCNGC 1 cut(s) 699
FspBI CTAG 2 cut(s) 77, 524
GluI GCNGC 1 cut(s) 699
GsaI CCCAGC 1 cut(s) 10
HaeIII GGCC 1 cut(s) 497
HapII CCGG 1 cut(s) 314
Hin1II CATG 2 cut(s) 291, 380
HindIII AAGCTT 1 cut(s) 125
HinfI GANTC 1 cut(s) 98
HpaII CCGG 1 cut(s) 314
HphI GGTGA 1 cut(s) 256
Hpy166II GTNNAC 1 cut(s) 427
Hpy188I TCNGA 2 cut(s) 23, 89
Hpy188III TCNNGA 2 cut(s) 41, 544
Hpy8I GTNNAC 1 cut(s) 427
HpyAV CCTTC 3 cut(s) 169, 217, 586
HpyCH4V TGCA 2 cut(s) 342, 351
HpyF10VI GCNNNNNNNGC 1 cut(s) 348
HpyF3I CTNAG 3 cut(s) 240, 461, 648
Hsp92II CATG 2 cut(s) 291, 380
Ksp22I TGATCA 2 cut(s) 37, 373
Kzo9I GATC 3 cut(s) 37, 185, 373
LmnI GCTCC 1 cut(s) 208
LweI GCATC 1 cut(s) 635
MaeI CTAG 2 cut(s) 77, 524
MaeIII GTNAC 1 cut(s) 452
MalI GATC 3 cut(s) 39, 187, 375
MboI GATC 3 cut(s) 37, 185, 373
MboII GAAGA 8 cut(s) 36, 259, 289, 290, 321, 373, 608, 666
MluCI AATT 5 cut(s) 143, 174, 195, 404, 653
MlyI GAGTC 1 cut(s) 107
MnlI CCTC 5 cut(s) 43, 70, 342, 409, 575
MseI TTAA 5 cut(s) 32, 72, 173, 483, 687
MslI CAYNNNNRTG 1 cut(s) 631
MspA1I CMGCKG 1 cut(s) 701
MspI CCGG 1 cut(s) 314
MspR9I CCNGG 1 cut(s) 315
MwoI GCNNNNNNNGC 1 cut(s) 348
NciI CCSGG 1 cut(s) 315
NdeII GATC 3 cut(s) 37, 185, 373
NheI GCTAGC 1 cut(s) 523
NlaIII CATG 2 cut(s) 291, 380
NlaIV GGNNCC 1 cut(s) 234
NmuCI GTSAC 1 cut(s) 452
NspI RCATGY 1 cut(s) 291
PciI ACATGT 1 cut(s) 287
PkrI GCNGC 1 cut(s) 700
PleI GAGTC 1 cut(s) 106
PpsI GAGTC 1 cut(s) 106
PpuMI RGGWCCY 1 cut(s) 232
PscI ACATGT 1 cut(s) 287
PsiI TTATAA 1 cut(s) 666
Psp5II RGGWCCY 1 cut(s) 232
PspFI CCCAGC 1 cut(s) 6
PspN4I GGNNCC 1 cut(s) 234
PspPI GGNCC 1 cut(s) 232
PspPPI RGGWCCY 1 cut(s) 232
PvuII CAGCTG 1 cut(s) 701
RsaI GTAC 1 cut(s) 270
RsaNI GTAC 1 cut(s) 269
RseI CAYNNNNRTG 1 cut(s) 631
SaqAI TTAA 5 cut(s) 32, 72, 173, 483, 687
SatI GCNGC 1 cut(s) 699
Sau3AI GATC 3 cut(s) 37, 185, 373
Sau96I GGNCC 1 cut(s) 232
SchI GAGTC 1 cut(s) 107
ScrFI CCNGG 1 cut(s) 315
SfaNI GCATC 1 cut(s) 635
SfcI CTRYAG 1 cut(s) 528
SinI GGWCC 1 cut(s) 232
SmiMI CAYNNNNRTG 1 cut(s) 631
SmlI CTYRAG 2 cut(s) 128, 357
SmoI CTYRAG 2 cut(s) 128, 357
Sse9I AATT 5 cut(s) 143, 174, 195, 404, 653
SspMI CTAG 2 cut(s) 77, 524
StyD4I CCNGG 1 cut(s) 313
TasI AATT 5 cut(s) 143, 174, 195, 404, 653
Tru1I TTAA 5 cut(s) 32, 72, 173, 483, 687
Tru9I TTAA 5 cut(s) 32, 72, 173, 483, 687
TscAI CASTG 2 cut(s) 69, 341
TseFI GTSAC 1 cut(s) 452
TseI GCWGC 1 cut(s) 698
Tsp45I GTSAC 1 cut(s) 452
TspDTI ATGAA 2 cut(s) 126, 377
TspRI CASTG 2 cut(s) 69, 341
VpaK11BI GGWCC 1 cut(s) 232
XapI RAATTY 2 cut(s) 143, 653
XceI RCATGY 1 cut(s) 291
XspI CTAG 2 cut(s) 77, 524
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.