Rh1DG399600

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0014009
Physical Location & Seq
Forward (+)
61946583 .. 61949724
3142 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG399600.1

Sequence Viewer

Length: 570 bp
ATGGCTTCGAAAACGAATCAGTCTCTGCTGCCGGAGATCGGACCCGACGGCCTTGCTCGCGAGGCCTCCGTCATTACCTACACTGAGAAAGTGATCGAGGAAGAACAGCATCAATTAAGGAAATATATAGAAGAAAATTACTCTAAAATCCGCGATGTCGAGCGAGAGTTTGCAAGTCTTTCAATGGAAATGAAACTCACAGCTGGGCCGAAAAAATCAGCTCTTGAACACTTGAGGAAGAAAATAGAGATGGCAACAGAGAGAATTCACGCTGCAAAGCTCAAGGAAGATCAAGCAAAAAAGGCATGGGAAGCAGCAGCAAAGGTCGTTAAGGATGAGGAAGCCATCAAGCAGAAGCTATGTGAAGACTTAAATAGTCTGGTACAAGAAAGCAGCAATACTCAGTTTTCAAGACTGGAGGAGTTAAAAAGACGACTTGAAGCTTTGAACCCAACCAGGTCCTCGGCCTCGGTTTCTCTTGTAAGTTCTCTTTACATATATGAGGATATTATATTTATAAAATTGTGGATGGGATGGATGGCATTGCATTGTAGTTATCAAGTGAAATAG
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
Transcrip_act

Protein Analysis

189

Amino Acids

21.73

Weight (kDa)

6.93

Isoelectric Point (pI)

50.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transcrip_act PF04949 23 - 147 1.3e-06 Transcriptional activator
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014009)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G51840
fragaria_vesca FvH4_7g28720 FvH4_7g28720
malus_domestica MD00G1004200.v1.1 MD01G1193100.v1.1
prunus_persica Prupe.2G287200_v2.0.a1
pyrus_communis pycom01g20370
rosa_chinensis RchiOBHm_Chr1g0376221
rosa_laevigata RLG00000026618
rosa_roxburghii Rroxscaffold_4G00282290
rosa_rugosa Rorug01G0394500 Rorug01G0394600
rosa_samantha Rh1AG406100 Rh1BG369800 Rh1CG382700 Rh1DG399600
rosa_wichuraiana Rw1G036030

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 518
AccII CGCG 2 cut(s) 60, 153
AciI CCGC 1 cut(s) 151
AcsI RAATTY 1 cut(s) 264
AfaI GTAC 1 cut(s) 384
AfiI CCNNNNNNNGG 1 cut(s) 38
AgsI TTSAA 5 cut(s) 183, 227, 411, 440, 448
AjnI CCWGG 1 cut(s) 455
AluBI AGCT 5 cut(s) 203, 221, 280, 358, 443
AluI AGCT 5 cut(s) 203, 221, 280, 358, 443
Alw26I GTCTC 1 cut(s) 27
AlwNI CAGNNNCTG 1 cut(s) 25
AoxI GGCC 4 cut(s) 49, 63, 206, 465
ApeKI GCWGC 5 cut(s) 28, 272, 314, 317, 393
ApoI RAATTY 1 cut(s) 264
AspS9I GGNCC 3 cut(s) 41, 206, 459
AsuII TTCGAA 1 cut(s) 8
AvaII GGWCC 2 cut(s) 41, 459
BbsI GAAGAC 1 cut(s) 372
BbvI GCAGC 5 cut(s) 15, 259, 326, 329, 405
BccI CCATC 5 cut(s) 244, 353, 523, 528, 532
BceAI ACGGC 1 cut(s) 64
BcgI CGANNNNNNTGC 2 cut(s) 35, 69
BciT130I CCWGG 1 cut(s) 457
BcoDI GTCTC 1 cut(s) 27
BisI GCNGC 5 cut(s) 29, 273, 315, 318, 394
BlsI GCNGC 5 cut(s) 30, 274, 316, 319, 395
Bme1390I CCNGG 1 cut(s) 457
Bme18I GGWCC 2 cut(s) 41, 459
BmgT120I GGNCC 3 cut(s) 41, 206, 459
BmiI GGNNCC 1 cut(s) 43
BmrFI CCNGG 1 cut(s) 457
BmsI GCATC 1 cut(s) 118
BpiI GAAGAC 1 cut(s) 372
BpmI CTGGAG 1 cut(s) 437
Bpu14I TTCGAA 1 cut(s) 8
BpuEI CTTGAG 2 cut(s) 253, 266
BsaJI CCNNGG 2 cut(s) 462, 468
Bsc4I CCNNNNNNNGG 1 cut(s) 38
Bse1I ACTGG 1 cut(s) 420
Bse3DI GCAATG 1 cut(s) 542
BseBI CCWGG 1 cut(s) 457
BseDI CCNNGG 2 cut(s) 462, 468
BseGI GGATG 4 cut(s) 340, 534, 539, 543
BseLI CCNNNNNNNGG 1 cut(s) 38
BseMI GCAATG 1 cut(s) 542
BseMII CTCAG 2 cut(s) 75, 416
BseNI ACTGG 1 cut(s) 420
BseRI GAGGAG 1 cut(s) 434
BseXI GCAGC 5 cut(s) 15, 259, 326, 329, 405
BseYI CCCAGC 1 cut(s) 203
Bsh1236I CGCG 2 cut(s) 60, 153
BshFI GGCC 4 cut(s) 51, 65, 208, 467
BsiSI CCGG 1 cut(s) 32
BslI CCNNNNNNNGG 1 cut(s) 38
BsmAI GTCTC 1 cut(s) 27
BsnI GGCC 4 cut(s) 51, 65, 208, 467
Bsp119I TTCGAA 1 cut(s) 8
Bsp143I GATC 3 cut(s) 36, 93, 289
Bsp68I TCGCGA 1 cut(s) 60
BspACI CCGC 1 cut(s) 151
BspANI GGCC 4 cut(s) 51, 65, 208, 467
BspCNI CTCAG 2 cut(s) 76, 415
BspFNI CGCG 2 cut(s) 60, 153
BspLI GGNNCC 1 cut(s) 43
BspT104I TTCGAA 1 cut(s) 8
BsrDI GCAATG 1 cut(s) 542
BsrI ACTGG 1 cut(s) 420
BssECI CCNNGG 2 cut(s) 462, 468
BssMI GATC 3 cut(s) 36, 93, 289
Bst2UI CCWGG 1 cut(s) 457
BstBI TTCGAA 1 cut(s) 8
BstC8I GCNNGC 1 cut(s) 58
BstDEI CTNAG 2 cut(s) 84, 402
BstF5I GGATG 4 cut(s) 340, 534, 539, 543
BstFNI CGCG 2 cut(s) 60, 153
BstKTI GATC 3 cut(s) 39, 96, 292
BstMAI GTCTC 1 cut(s) 27
BstMBI GATC 3 cut(s) 36, 93, 289
BstMWI GCNNNNNNNGC 4 cut(s) 57, 62, 302, 311
BstNI CCWGG 1 cut(s) 457
BstSCI CCNGG 1 cut(s) 455
BstUI CGCG 2 cut(s) 60, 153
BstV1I GCAGC 5 cut(s) 15, 259, 326, 329, 405
BstV2I GAAGAC 1 cut(s) 372
BsuRI GGCC 4 cut(s) 51, 65, 208, 467
BtgZI GCGATG 1 cut(s) 168
BtsCI GGATG 4 cut(s) 340, 534, 539, 543
BtsIMutI CAGTG 1 cut(s) 81
BtuMI TCGCGA 1 cut(s) 60
Cac8I GCNNGC 1 cut(s) 58
CaiI CAGNNNCTG 1 cut(s) 25
Cfr13I GGNCC 3 cut(s) 41, 206, 459
CsiI ACCWGGT 1 cut(s) 455
Csp6I GTAC 1 cut(s) 383
CviAII CATG 1 cut(s) 306
CviQI GTAC 1 cut(s) 383
DdeI CTNAG 2 cut(s) 84, 402
DpnI GATC 3 cut(s) 38, 95, 291
DpnII GATC 3 cut(s) 36, 93, 289
Eco147I AGGCCT 1 cut(s) 65
Eco47I GGWCC 2 cut(s) 41, 459
EcoO109I RGGNCCY 1 cut(s) 459
EcoRI GAATTC 1 cut(s) 264
EcoRII CCWGG 1 cut(s) 455
FaeI CATG 1 cut(s) 309
FaiI YATR 9 cut(s) 126, 128, 307, 361, 497, 499, 501, 512, 518
FatI CATG 1 cut(s) 305
Fnu4HI GCNGC 5 cut(s) 29, 273, 315, 318, 394
FokI GGATG 4 cut(s) 347, 541, 546, 550
Fsp4HI GCNGC 5 cut(s) 29, 273, 315, 318, 394
GluI GCNGC 5 cut(s) 29, 273, 315, 318, 394
GsaI CCCAGC 1 cut(s) 207
GsuI CTGGAG 1 cut(s) 437
HaeIII GGCC 4 cut(s) 51, 65, 208, 467
HapII CCGG 1 cut(s) 32
Hin1II CATG 1 cut(s) 309
HindIII AAGCTT 1 cut(s) 441
HinfI GANTC 1 cut(s) 16
HpaII CCGG 1 cut(s) 32
Hpy188I TCNGA 1 cut(s) 41
Hpy188III TCNNGA 3 cut(s) 59, 224, 411
Hpy99I CGWCG 1 cut(s) 50
HpyCH4V TGCA 3 cut(s) 173, 275, 547
HpyF10VI GCNNNNNNNGC 4 cut(s) 57, 62, 302, 311
HpyF3I CTNAG 2 cut(s) 84, 402
Hsp92II CATG 1 cut(s) 309
Kzo9I GATC 3 cut(s) 36, 93, 289
LpnPI CCDG 6 cut(s) 45, 189, 365, 401, 442, 469
Lsp1109I GCAGC 5 cut(s) 15, 259, 326, 329, 405
LweI GCATC 1 cut(s) 118
MabI ACCWGGT 1 cut(s) 455
MalI GATC 3 cut(s) 38, 95, 291
MboI GATC 3 cut(s) 36, 93, 289
MboII GAAGA 5 cut(s) 113, 143, 250, 299, 377
MluCI AATT 4 cut(s) 113, 136, 264, 521
MnlI CCTC 9 cut(s) 55, 76, 91, 228, 331, 412, 472, 478, 496
MseI TTAA 4 cut(s) 116, 330, 371, 425
MspA1I CMGCKG 1 cut(s) 203
MspI CCGG 1 cut(s) 32
MspR9I CCNGG 1 cut(s) 457
MvaI CCWGG 1 cut(s) 457
MvnI CGCG 2 cut(s) 60, 153
MwoI GCNNNNNNNGC 4 cut(s) 57, 62, 302, 311
NdeII GATC 3 cut(s) 36, 93, 289
NlaIII CATG 1 cut(s) 309
NlaIV GGNNCC 1 cut(s) 43
NmeAIII GCCGAG 1 cut(s) 443
NruI TCGCGA 1 cut(s) 60
NspV TTCGAA 1 cut(s) 8
PceI AGGCCT 1 cut(s) 65
PfeI GAWTC 1 cut(s) 16
PkrI GCNGC 5 cut(s) 30, 274, 316, 319, 395
PpuMI RGGWCCY 1 cut(s) 459
PsiI TTATAA 1 cut(s) 518
Psp5II RGGWCCY 1 cut(s) 459
Psp6I CCWGG 1 cut(s) 455
PspFI CCCAGC 1 cut(s) 203
PspGI CCWGG 1 cut(s) 455
PspN4I GGNNCC 1 cut(s) 43
PspPI GGNCC 3 cut(s) 41, 206, 459
PspPPI RGGWCCY 1 cut(s) 459
PstNI CAGNNNCTG 1 cut(s) 25
PvuII CAGCTG 1 cut(s) 203
RruI TCGCGA 1 cut(s) 60
RsaI GTAC 1 cut(s) 384
RsaNI GTAC 1 cut(s) 383
SaqAI TTAA 4 cut(s) 116, 330, 371, 425
SatI GCNGC 5 cut(s) 29, 273, 315, 318, 394
Sau3AI GATC 3 cut(s) 36, 93, 289
Sau96I GGNCC 3 cut(s) 41, 206, 459
ScrFI CCNGG 1 cut(s) 457
SetI ASST 8 cut(s) 80, 205, 223, 282, 327, 360, 445, 461
SexAI ACCWGGT 1 cut(s) 455
SfaNI GCATC 1 cut(s) 118
SfuI TTCGAA 1 cut(s) 8
SinI GGWCC 2 cut(s) 41, 459
SmlI CTYRAG 2 cut(s) 232, 281
SmoI CTYRAG 2 cut(s) 232, 281
Sse9I AATT 4 cut(s) 113, 136, 264, 521
SseBI AGGCCT 1 cut(s) 65
SsiI CCGC 1 cut(s) 151
StuI AGGCCT 1 cut(s) 65
StyD4I CCNGG 1 cut(s) 455
TaqI TCGA 3 cut(s) 8, 96, 159
TasI AATT 4 cut(s) 113, 136, 264, 521
TfiI GAWTC 1 cut(s) 16
Tru1I TTAA 4 cut(s) 116, 330, 371, 425
Tru9I TTAA 4 cut(s) 116, 330, 371, 425
TscAI CASTG 1 cut(s) 88
TseI GCWGC 5 cut(s) 28, 272, 314, 317, 393
TspDTI ATGAA 1 cut(s) 206
TspGWI ACGGA 1 cut(s) 58
TspRI CASTG 1 cut(s) 88
VpaK11BI GGWCC 2 cut(s) 41, 459
XapI RAATTY 1 cut(s) 264
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.