Rh3DG022800

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0000270
Physical Location & Seq
Forward (+)
1505943 .. 1506530
588 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG022800.1

Sequence Viewer

Length: 588 bp
ATGAAAGAAAACCAAGTGGATGGCAAACCAGAATGGTGTTTACTTCATCACATATCTTCTCTGTCAGAGATGGTTGCAAAACAACCTTTCATCAGTTTAAGTTTTGAAATCGTAGGTTTCCACCCGGTTCATGGGGATATAGTGTACTTACAACATAACGATATATATAGTGAGCCAAGATACATAGTCACGTGCAATGTTCGTGAAAGAACAATAGAGATAGCTACAAAAATTCCATTTGAAAATAGTCCTGGATACGCTTGGGCCCCTGAGCAGATTTGCGACAATGTGATCCCATGGTGGCCAACACCAATTCCAACAAGACTACACTATCACGAGGAGTGCCTAAATATCACTGTGATTAGTGTAGACACCTTTACTATTAAGGTAGGTTGCTTAAGTAATGTTAAGCAATTGAAACAAAAACTTGAAGAGAAGAAAGGGCCTGGGCAATATGAACTACATTTTGATGGGCGAGTTTTAGAAGATGATGACAAATGGCTTGCTGATTATGGAATCAAGGACAAATCAAAGATTTACATTGGCGAACATTGTTCGAAAGAGTGGCTTATGTCAAAGTCTTACTAG
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
No domains found.

Protein Analysis

195

Amino Acids

22.66

Weight (kDa)

5.7

Isoelectric Point (pI)

38.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ubiquitin PF00240 117 - 179 2.1e-09 Ubiquitin family
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: OG0000270)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g30622 FvH4_4g16921 FvH4_4g17782 FvH4_4g17783 FvH4_4g18120 FvH4_6g01541 FvH4_6g02021 FvH4_6g02041 FvH4_6g02071 FvH4_6g02171 FvH4_6g10900 FvH4_6g37932
malus_domestica MD03G1256400.v1.1 MD05G1244200.v1.1 MD10G1000600.v1.1 MD14G1187900.v1.1 MD15G1018100.v1.1
prunus_persica Prupe.2G073200_v2.0.a1 Prupe.3G246100_v2.0.a1 Prupe.3G265100_v2.0.a1 Prupe.4G034700_v2.0.a1 Prupe.4G052100_v2.0.a1 Prupe.4G053600_v2.0.a1 Prupe.5G068800_v2.0.a1 Prupe.5G070600_v2.0.a1 Prupe.5G070600_v2.0.a1 Prupe.6G075400_v2.0.a1 Prupe.6G075500_v2.0.a1 Prupe.7G028100_v2.0.a1 Prupe.8G074300_v2.0.a1 Prupe.8G110700_v2.0.a1
pyrus_communis pycom05g22060
rosa_chinensis RchiOBHm_Chr2g0151111 RchiOBHm_Chr3g0449911 RchiOBHm_Chr3g0450211 RchiOBHm_Chr3g0457271
rosa_laevigata RLG00000010311 RLG00000010333 RLG00000020423 RLG00000020530 RLG00000020531 RLG00000025776 RLG00000025778 RLG00000025779 RLG00000025780 RLG00000025782 RLG00000025784 RLG00000025786 RLG00000025789 RLG00000025797 RLG00000025820 RLG00000029780 RLG00000029788 RLG00000029793 RLG00000029794 RLG00000029795 RLG00000029798
rosa_multiflora Rmu_co8159556.1_g000001 Rmu_co8268783.1_g000001 Rmu_co8467147.1_g000001 Rmu_sc0000610.1_g000001 Rmu_sc0000610.1_g000009 Rmu_sc0002725.1_g000015 Rmu_sc0004401.1_g000009 Rmu_sc0004404.1_g000009 Rmu_sc0004404.1_g000016 Rmu_sc0005524.1_g000001 Rmu_sc0005524.1_g000004 Rmu_sc0006867.1_g000019 Rmu_sc0008007.1_g000002 Rmu_sc0010912.1_g000004 Rmu_sc0010912.1_g000005 Rmu_sc0013983.1_g000005 Rmu_sc0020391.1_g000001 Rmu_sc0032173.1_g000001 Rmu_sc0036096.1_g000001 Rmu_sc0043012.1_g000001 Rmu_ssc0000424.1_g000019
rosa_roxburghii Rroxscaffold_2G00097990 Rroxscaffold_6G00420940 Rroxscaffold_6G00427700
rosa_rugosa Rorug02G0424600 Rorug02G0424700 Rorug02G0623900 Rorug05G0571000 Rorug05G0571100 Rorug06G0395100
rosa_samantha Rh1CG104900 Rh1DG114100 Rh2AG485200 Rh2BG497300 Rh2DG508200 Rh2DG508300 Rh3AG022000 Rh3AG022300 Rh3AG022500 Rh3AG022600 Rh3AG022800 Rh3AG023000 Rh3BG020000 Rh3BG022700 Rh3BG022900 Rh3BG023000 Rh3BG023200 Rh3BG023300 Rh3BG023600 Rh3CG018700 Rh3CG021100 Rh3CG021600 Rh3CG021800 Rh3CG021900 Rh3CG022100 Rh3CG022200 Rh3CG022600 Rh3DG022400 Rh3DG022700 Rh3DG022800 Rh3DG023000 Rh3DG023100 Rh3DG023500 Rh6AG511800 Rh6AG512500 Rh6BG523100 Rh6BG523300 Rh6CG528700 Rh6DG514700
rosa_wichuraiana Rw1G008720 Rw2G039750 Rw3G001810 Rw3G002050 Rw6G044530

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 369
AclWI GGATC 1 cut(s) 286
AcoI YGGCCR 1 cut(s) 302
AcsI RAATTY 1 cut(s) 231
AcvI CACGTG 1 cut(s) 192
AfaI GTAC 1 cut(s) 146
AfiI CCNNNNNNNGG 1 cut(s) 131
AflII CTTAAG 1 cut(s) 397
AgsI TTSAA 4 cut(s) 107, 242, 418, 431
AjnI CCWGG 2 cut(s) 250, 445
AluBI AGCT 1 cut(s) 224
AluI AGCT 1 cut(s) 224
AlwI GGATC 1 cut(s) 286
AoxI GGCC 3 cut(s) 264, 302, 443
ApaI GGGCCC 1 cut(s) 268
ApoI RAATTY 1 cut(s) 231
AspS9I GGNCC 3 cut(s) 264, 265, 443
AsuC2I CCSGG 1 cut(s) 125
AsuII TTCGAA 1 cut(s) 557
BaeGI GKGCMC 1 cut(s) 268
BalI TGGCCA 1 cut(s) 304
BanII GRGCYC 1 cut(s) 268
BauI CACGAG 1 cut(s) 335
BbrPI CACGTG 1 cut(s) 192
BccI CCATC 3 cut(s) 14, 64, 464
BciT130I CCWGG 2 cut(s) 252, 447
BciVI GTATCC 1 cut(s) 248
BcnI CCSGG 1 cut(s) 125
BfaI CTAG 1 cut(s) 586
BfrI CTTAAG 1 cut(s) 397
BfuI GTATCC 1 cut(s) 248
Bme1390I CCNGG 3 cut(s) 125, 252, 447
BmgT120I GGNCC 3 cut(s) 264, 265, 443
BmiI GGNNCC 2 cut(s) 266, 267
BmrFI CCNGG 3 cut(s) 125, 252, 447
Bpu10I CCTNAGC 1 cut(s) 270
Bpu14I TTCGAA 1 cut(s) 557
BpuMI CCSGG 1 cut(s) 125
BsaAI YACGTR 1 cut(s) 192
BsaJI CCNNGG 2 cut(s) 296, 446
Bsc4I CCNNNNNNNGG 1 cut(s) 131
Bse3DI GCAATG 1 cut(s) 202
BseBI CCWGG 2 cut(s) 252, 447
BseDI CCNNGG 2 cut(s) 296, 446
BseGI GGATG 1 cut(s) 25
BseLI CCNNNNNNNGG 1 cut(s) 131
BseMI GCAATG 1 cut(s) 202
BseMII CTCAG 1 cut(s) 261
BseRI GAGGAG 1 cut(s) 353
BseSI GKGCMC 1 cut(s) 268
BshFI GGCC 3 cut(s) 266, 304, 445
BsiSI CCGG 1 cut(s) 125
BslI CCNNNNNNNGG 1 cut(s) 131
BsnI GGCC 3 cut(s) 266, 304, 445
Bsp119I TTCGAA 1 cut(s) 557
Bsp120I GGGCCC 1 cut(s) 264
Bsp1286I GDGCHC 1 cut(s) 268
Bsp143I GATC 1 cut(s) 291
Bsp19I CCATGG 1 cut(s) 296
BspANI GGCC 3 cut(s) 266, 304, 445
BspCNI CTCAG 1 cut(s) 262
BspLI GGNNCC 2 cut(s) 266, 267
BspPI GGATC 1 cut(s) 286
BspT104I TTCGAA 1 cut(s) 557
BspTI CTTAAG 1 cut(s) 397
BsrDI GCAATG 1 cut(s) 202
BssECI CCNNGG 2 cut(s) 296, 446
BssMI GATC 1 cut(s) 291
BssSI CACGAG 1 cut(s) 335
BssT1I CCWWGG 1 cut(s) 296
Bst2BI CACGAG 1 cut(s) 335
Bst2UI CCWGG 2 cut(s) 252, 447
Bst4CI ACNGT 1 cut(s) 358
Bst6I CTCTTC 1 cut(s) 426
BstAFI CTTAAG 1 cut(s) 397
BstBAI YACGTR 1 cut(s) 192
BstBI TTCGAA 1 cut(s) 557
BstC8I GCNNGC 1 cut(s) 504
BstDEI CTNAG 1 cut(s) 270
BstDSI CCRYGG 1 cut(s) 296
BstF5I GGATG 1 cut(s) 25
BstKTI GATC 1 cut(s) 294
BstMBI GATC 1 cut(s) 291
BstNI CCWGG 2 cut(s) 252, 447
BstSCI CCNGG 3 cut(s) 123, 250, 445
BstSLI GKGCMC 1 cut(s) 268
BstXI CCANNNNNNTGG 1 cut(s) 20
BsuI GTATCC 1 cut(s) 248
BsuRI GGCC 3 cut(s) 266, 304, 445
BtgI CCRYGG 1 cut(s) 296
BtsCI GGATG 1 cut(s) 25
BtsIMutI CAGTG 1 cut(s) 354
Cac8I GCNNGC 1 cut(s) 504
Cfr13I GGNCC 3 cut(s) 264, 265, 443
Csp6I GTAC 1 cut(s) 145
CviAII CATG 2 cut(s) 131, 297
CviJI RGCY 7 cut(s) 175, 224, 266, 304, 445, 502, 568
CviKI_1 RGCY 7 cut(s) 175, 224, 266, 304, 445, 502, 568
CviQI GTAC 1 cut(s) 145
DdeI CTNAG 1 cut(s) 270
DpnI GATC 1 cut(s) 293
DpnII GATC 1 cut(s) 291
EaeI YGGCCR 1 cut(s) 302
Eam1104I CTCTTC 1 cut(s) 426
EarI CTCTTC 1 cut(s) 426
Eco130I CCWWGG 1 cut(s) 296
Eco24I GRGCYC 1 cut(s) 268
Eco72I CACGTG 1 cut(s) 192
EcoO109I RGGNCCY 2 cut(s) 265, 443
EcoRII CCWGG 2 cut(s) 250, 445
EcoT14I CCWWGG 1 cut(s) 296
EcoT38I GRGCYC 1 cut(s) 268
ErhI CCWWGG 1 cut(s) 296
FaeI CATG 2 cut(s) 134, 300
FalI AAGNNNNNCTT 2 cut(s) 552, 584
FatI CATG 2 cut(s) 130, 296
FblI GTMKAC 1 cut(s) 369
FokI GGATG 1 cut(s) 32
FriOI GRGCYC 1 cut(s) 268
FspBI CTAG 1 cut(s) 586
HaeIII GGCC 3 cut(s) 266, 304, 445
HapII CCGG 1 cut(s) 125
Hin1II CATG 2 cut(s) 134, 300
HinfI GANTC 1 cut(s) 516
HpaII CCGG 1 cut(s) 125
Hpy166II GTNNAC 3 cut(s) 41, 145, 370
Hpy188I TCNGA 1 cut(s) 67
Hpy188III TCNNGA 2 cut(s) 203, 335
Hpy8I GTNNAC 3 cut(s) 41, 145, 370
HpyCH4III ACNGT 1 cut(s) 358
HpyCH4IV ACGT 1 cut(s) 191
HpyCH4V TGCA 2 cut(s) 77, 195
HpyF3I CTNAG 1 cut(s) 270
HpySE526I ACGT 1 cut(s) 191
Hsp92II CATG 2 cut(s) 134, 300
Kzo9I GATC 1 cut(s) 291
LpnPI CCDG 7 cut(s) 42, 138, 237, 264, 282, 432, 459
MaeI CTAG 1 cut(s) 586
MaeII ACGT 1 cut(s) 191
MaeIII GTNAC 1 cut(s) 187
MalI GATC 1 cut(s) 293
MboI GATC 1 cut(s) 291
MboII GAAGA 4 cut(s) 48, 443, 448, 497
MfeI CAATTG 1 cut(s) 413
MhlI GDGCHC 1 cut(s) 268
MlsI TGGCCA 1 cut(s) 304
MluCI AATT 3 cut(s) 231, 312, 413
MluNI TGGCCA 1 cut(s) 304
MmeI TCCRAC 1 cut(s) 341
MnlI CCTC 1 cut(s) 331
Mox20I TGGCCA 1 cut(s) 304
MscI TGGCCA 1 cut(s) 304
MseI TTAA 4 cut(s) 98, 384, 398, 408
MslI CAYNNNNRTG 1 cut(s) 468
Msp20I TGGCCA 1 cut(s) 304
MspCI CTTAAG 1 cut(s) 397
MspI CCGG 1 cut(s) 125
MspR9I CCNGG 3 cut(s) 125, 252, 447
MunI CAATTG 1 cut(s) 413
MvaI CCWGG 2 cut(s) 252, 447
NciI CCSGG 1 cut(s) 125
NcoI CCATGG 1 cut(s) 296
NdeII GATC 1 cut(s) 291
NlaIII CATG 2 cut(s) 134, 300
NlaIV GGNNCC 2 cut(s) 266, 267
NmuCI GTSAC 1 cut(s) 187
NspV TTCGAA 1 cut(s) 557
PfeI GAWTC 1 cut(s) 516
PfoI TCCNGGA 1 cut(s) 250
PmaCI CACGTG 1 cut(s) 192
PmlI CACGTG 1 cut(s) 192
Ppu21I YACGTR 1 cut(s) 192
Psp6I CCWGG 2 cut(s) 250, 445
PspCI CACGTG 1 cut(s) 192
PspGI CCWGG 2 cut(s) 250, 445
PspN4I GGNNCC 2 cut(s) 266, 267
PspOMI GGGCCC 1 cut(s) 264
PspPI GGNCC 3 cut(s) 264, 265, 443
RsaI GTAC 1 cut(s) 146
RsaNI GTAC 1 cut(s) 145
RseI CAYNNNNRTG 1 cut(s) 468
SaqAI TTAA 4 cut(s) 98, 384, 398, 408
Sau3AI GATC 1 cut(s) 291
Sau96I GGNCC 3 cut(s) 264, 265, 443
ScrFI CCNGG 3 cut(s) 125, 252, 447
SduI GDGCHC 1 cut(s) 268
SetI ASST 7 cut(s) 88, 118, 194, 226, 377, 390, 394
SfuI TTCGAA 1 cut(s) 557
SmiMI CAYNNNNRTG 1 cut(s) 468
SmlI CTYRAG 1 cut(s) 397
SmoI CTYRAG 1 cut(s) 397
Sse9I AATT 3 cut(s) 231, 312, 413
SspMI CTAG 1 cut(s) 586
StyD4I CCNGG 3 cut(s) 123, 250, 445
StyI CCWWGG 1 cut(s) 296
TaaI ACNGT 1 cut(s) 358
TaiI ACGT 1 cut(s) 194
TaqI TCGA 1 cut(s) 557
TasI AATT 3 cut(s) 231, 312, 413
TatI WGTACW 1 cut(s) 144
TfiI GAWTC 1 cut(s) 516
Tru1I TTAA 4 cut(s) 98, 384, 398, 408
Tru9I TTAA 4 cut(s) 98, 384, 398, 408
TscAI CASTG 1 cut(s) 361
TseFI GTSAC 1 cut(s) 187
Tsp45I GTSAC 1 cut(s) 187
TspDTI ATGAA 5 cut(s) 17, 35, 79, 119, 471
TspRI CASTG 1 cut(s) 361
Vha464I CTTAAG 1 cut(s) 397
XapI RAATTY 1 cut(s) 231
XcmI CCANNNNNNNNNTGG 1 cut(s) 128
XmiI GTMKAC 1 cut(s) 369
XspI CTAG 1 cut(s) 586
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.