Rmu_sc0006123.1_g000002

ribonuclease H protein At1g65750

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006123.1
OG0000842
Physical Location & Seq
Forward (+)
2265 .. 2711
447 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0006123.1_g000002.1.cds

Sequence Viewer

Length: 447 bp
atgagctgggactttgggttcaagagaaacttaaatgaccaagagattgaagagttcgcctcgttgatagctaagctagaaaatgtcaggttagtggagtccaatcccaatgaaaggaggtggaagcttgagcctactggaaaattctcttgcaaatctttccatagctttttatctagtggtgccttagatccaaactttgctcttgcaaagtttatttggaacgtcaaggtccctacaaaggtgaagattttgggatggcttgtggtattggggaagacaaatacttgtgatgtccttcaaaagaaaagaccgggaagttgtttttctcctcactggtgtattttatgcaaaaaccaaggggaaagtactgatcatgtctttgtgcattgtgaagtgactattttcttatggaaaaagctttttagggaggcaagagtggactag
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

148

Amino Acids

17.15

Weight (kDa)

9.1

Isoelectric Point (pI)

45.79

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB1I GGYRCC 1 cut(s) 182
AclWI GGATC 1 cut(s) 185
AcsI RAATTY 1 cut(s) 143
AfaI GTAC 1 cut(s) 370
AfiI CCNNNNNNNGG 2 cut(s) 114, 241
AgsI TTSAA 3 cut(s) 22, 50, 302
AloI GAACNNNNNNTCC 1 cut(s) 34
AluBI AGCT 6 cut(s) 6, 71, 76, 127, 168, 421
AluI AGCT 6 cut(s) 6, 71, 76, 127, 168, 421
AlwI GGATC 1 cut(s) 185
ApoI RAATTY 1 cut(s) 143
AspS9I GGNCC 1 cut(s) 232
AsuC2I CCSGG 1 cut(s) 315
AsuHPI GGTGA 1 cut(s) 256
AvaII GGWCC 1 cut(s) 232
BanI GGYRCC 1 cut(s) 182
BbsI GAAGAC 1 cut(s) 284
BccI CCATC 1 cut(s) 252
BclI TGATCA 1 cut(s) 373
BcnI CCSGG 1 cut(s) 315
BfaI CTAG 3 cut(s) 77, 177, 445
BlpI GCTNAGC 1 cut(s) 72
BmcAI AGTACT 1 cut(s) 370
Bme1390I CCNGG 1 cut(s) 315
Bme18I GGWCC 1 cut(s) 232
BmgT120I GGNCC 1 cut(s) 232
BmiI GGNNCC 2 cut(s) 184, 234
BmrFI CCNGG 1 cut(s) 315
BpiI GAAGAC 1 cut(s) 284
BplI GAGNNNNNCTC 2 cut(s) 44, 76
Bpu1102I GCTNAGC 1 cut(s) 72
BpuEI CTTGAG 1 cut(s) 149
BpuMI CCSGG 1 cut(s) 315
BsaJI CCNNGG 1 cut(s) 358
Bsc4I CCNNNNNNNGG 2 cut(s) 114, 241
Bse1I ACTGG 2 cut(s) 142, 341
BseDI CCNNGG 1 cut(s) 358
BseGI GGATG 1 cut(s) 263
BseLI CCNNNNNNNGG 2 cut(s) 114, 241
BseNI ACTGG 2 cut(s) 142, 341
BseRI GAGGAG 1 cut(s) 321
BseYI CCCAGC 1 cut(s) 6
BshNI GGYRCC 1 cut(s) 182
BsiSI CCGG 1 cut(s) 314
BslFI GGGAC 2 cut(s) 23, 218
BslI CCNNNNNNNGG 2 cut(s) 114, 241
BsmFI GGGAC 2 cut(s) 23, 218
Bsp143I GATC 2 cut(s) 190, 373
Bsp1720I GCTNAGC 1 cut(s) 72
BspLI GGNNCC 2 cut(s) 184, 234
BspPI GGATC 1 cut(s) 185
BspT107I GGYRCC 1 cut(s) 182
BsrI ACTGG 2 cut(s) 142, 341
BssECI CCNNGG 1 cut(s) 358
BssMI GATC 2 cut(s) 190, 373
BssT1I CCWWGG 1 cut(s) 358
Bst6I CTCTTC 1 cut(s) 45
BstDEI CTNAG 2 cut(s) 72, 187
BstF5I GGATG 1 cut(s) 263
BstKTI GATC 2 cut(s) 193, 376
BstMBI GATC 2 cut(s) 190, 373
BstSCI CCNGG 1 cut(s) 313
BstV2I GAAGAC 1 cut(s) 284
BstX2I RGATCY 1 cut(s) 190
BstYI RGATCY 1 cut(s) 190
BtsCI GGATG 1 cut(s) 263
BtsIMutI CAGTG 1 cut(s) 334
Cfr13I GGNCC 1 cut(s) 232
Csp6I GTAC 1 cut(s) 369
CviAII CATG 1 cut(s) 377
CviJI RGCY 8 cut(s) 6, 71, 76, 127, 133, 168, 262, 421
CviKI_1 RGCY 8 cut(s) 6, 71, 76, 127, 133, 168, 262, 421
CviQI GTAC 1 cut(s) 369
DdeI CTNAG 2 cut(s) 72, 187
DpnI GATC 2 cut(s) 192, 375
DpnII GATC 2 cut(s) 190, 373
Eam1104I CTCTTC 1 cut(s) 45
EarI CTCTTC 1 cut(s) 45
Eco130I CCWWGG 1 cut(s) 358
Eco47I GGWCC 1 cut(s) 232
EcoO109I RGGNCCY 1 cut(s) 232
EcoT14I CCWWGG 1 cut(s) 358
ErhI CCWWGG 1 cut(s) 358
FaeI CATG 1 cut(s) 380
FaiI YATR 4 cut(s) 165, 349, 378, 412
FalI AAGNNNNNCTT 2 cut(s) 14, 46
FaqI GGGAC 2 cut(s) 23, 218
FatI CATG 1 cut(s) 376
FbaI TGATCA 1 cut(s) 373
FokI GGATG 1 cut(s) 270
FspBI CTAG 3 cut(s) 77, 177, 445
GsaI CCCAGC 1 cut(s) 10
HapII CCGG 1 cut(s) 314
Hin1II CATG 1 cut(s) 380
HindIII AAGCTT 2 cut(s) 125, 419
HinfI GANTC 1 cut(s) 98
HpaII CCGG 1 cut(s) 314
HphI GGTGA 1 cut(s) 256
Hpy166II GTNNAC 1 cut(s) 442
Hpy188III TCNNGA 1 cut(s) 22
Hpy8I GTNNAC 1 cut(s) 442
HpyAV CCTTC 1 cut(s) 308
HpyCH4IV ACGT 1 cut(s) 225
HpyCH4V TGCA 4 cut(s) 153, 209, 351, 388
HpyF3I CTNAG 2 cut(s) 72, 187
HpySE526I ACGT 1 cut(s) 225
Hsp92II CATG 1 cut(s) 380
Ksp22I TGATCA 1 cut(s) 373
Kzo9I GATC 2 cut(s) 190, 373
LpnPI CCDG 4 cut(s) 73, 123, 322, 327
MaeI CTAG 3 cut(s) 77, 177, 445
MaeII ACGT 1 cut(s) 225
MaeIII GTNAC 1 cut(s) 397
MalI GATC 2 cut(s) 192, 375
MboI GATC 2 cut(s) 190, 373
MboII GAAGA 3 cut(s) 62, 259, 289
MflI RGATCY 1 cut(s) 190
MluCI AATT 1 cut(s) 143
MlyI GAGTC 1 cut(s) 107
MnlI CCTC 4 cut(s) 70, 111, 342, 424
MseI TTAA 1 cut(s) 32
MspI CCGG 1 cut(s) 314
MspR9I CCNGG 1 cut(s) 315
NciI CCSGG 1 cut(s) 315
NdeII GATC 2 cut(s) 190, 373
NlaIII CATG 1 cut(s) 380
NlaIV GGNNCC 2 cut(s) 184, 234
NmuCI GTSAC 1 cut(s) 397
PleI GAGTC 1 cut(s) 106
PpsI GAGTC 1 cut(s) 106
PpuMI RGGWCCY 1 cut(s) 232
Psp5II RGGWCCY 1 cut(s) 232
PspFI CCCAGC 1 cut(s) 6
PspN4I GGNNCC 2 cut(s) 184, 234
PspPI GGNCC 1 cut(s) 232
PspPPI RGGWCCY 1 cut(s) 232
PsuI RGATCY 1 cut(s) 190
RsaI GTAC 1 cut(s) 370
RsaNI GTAC 1 cut(s) 369
SaqAI TTAA 1 cut(s) 32
Sau3AI GATC 2 cut(s) 190, 373
Sau96I GGNCC 1 cut(s) 232
ScaI AGTACT 1 cut(s) 370
SchI GAGTC 1 cut(s) 107
ScrFI CCNGG 1 cut(s) 315
SinI GGWCC 1 cut(s) 232
SmlI CTYRAG 1 cut(s) 128
SmoI CTYRAG 1 cut(s) 128
Sse9I AATT 1 cut(s) 143
SspMI CTAG 3 cut(s) 77, 177, 445
StyD4I CCNGG 1 cut(s) 313
StyI CCWWGG 1 cut(s) 358
TaiI ACGT 1 cut(s) 228
TasI AATT 1 cut(s) 143
TatI WGTACW 1 cut(s) 368
Tru1I TTAA 1 cut(s) 32
Tru9I TTAA 1 cut(s) 32
TscAI CASTG 1 cut(s) 341
TseFI GTSAC 1 cut(s) 397
Tsp45I GTSAC 1 cut(s) 397
TspDTI ATGAA 1 cut(s) 126
TspRI CASTG 1 cut(s) 341
VpaK11BI GGWCC 1 cut(s) 232
XapI RAATTY 1 cut(s) 143
XspI CTAG 3 cut(s) 77, 177, 445
ZrmI AGTACT 1 cut(s) 370
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.