Rh3DG162000

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0014506
Physical Location & Seq
Reverse (-)
14079824 .. 14081590
1767 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG162000.1

Sequence Viewer

Length: 678 bp
ATGCCGATTCGGAATCAGCTGAATTCCAGGGTTCCGATCAAGTTCCTCGCCTTCTGCGTCTTCCTCAGCTGCTTTCCAGGATGCATACTATCGGCGATTGTGACGCTTGATTCGATTGAGATATACAGCACGCACGAGCTGTTGAAAAGGCCGACGGTTTATTTCAAATGCAAAGGCGATCAGAACAAGACGGTGTTGCCGGACGTCAAGGAAAAGAAGGTCTTGTATAAATTCAACGGCCAAGAGTCTTGGCAGCCTTTGACAAAGCTCGAAGGTAAGAAGTGTAAGCGGTGTGGATTTTATGAGGAGGATACATTCAAATCAGATGACGTATTTGAGGAGTGGGAGCTGTGTCCTTCTGATTTCGATGGTCATGATGGAATATTCCGGCGAATCACAAAAGACGAATTCAATGCAACGTTTGTGTGTTCGGAGTGTGATACGACTGGATCCAAATCCAATAGCAAGTCGCATGAAGAAGCAAAGGGAAAGGGATTGCATATTGCTCTAGTTCTATTAATCGTTGCTGTCGTGTTAGCACTGTGTATCGCTGGAGGAGTAGCTGGATACAAGCACTGGCAAAAGAAGAAGCGACAGCAAGAACAGGCTCGGTTCTTAAAGCTGTTTGAAGATGGTGATGAGATTGAGGATGAATTAGGGCTTGATCATGTAATATGA
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

225

Amino Acids

25.64

Weight (kDa)

6.32

Isoelectric Point (pI)

44.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7953 PF25829 31 - 144 2e-52 Domain of unknown function (DUF7953)
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: OG0014506)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G53490
fragaria_vesca FvH4_6g14800
malus_domestica MD04G1110000.v1.1 MD12G1131500.v1.1
prunus_persica Prupe.6G245800_v2.0.a1
pyrus_communis pycom04g10600 pycom12g12720
rosa_chinensis RchiOBHm_Chr3g0468021
rosa_laevigata RLG00000024458
rosa_multiflora Rmu_sc0006706.1_g000009
rosa_roxburghii Rroxscaffold_6G00413170
rosa_rugosa Rorug03G0091500
rosa_samantha Rh3AG140200 Rh3BG161400 Rh3CG161500 Rh3DG162000
rosa_wichuraiana Rw3G013240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 207
AciI CCGC 1 cut(s) 289
AclI AACGTT 1 cut(s) 419
AclWI GGATC 2 cut(s) 444, 457
AcoI YGGCCR 1 cut(s) 238
AcsI RAATTY 3 cut(s) 22, 230, 407
AcyI GRCGYC 1 cut(s) 204
AgsI TTSAA 6 cut(s) 145, 166, 235, 319, 412, 629
AjnI CCWGG 2 cut(s) 26, 76
AluBI AGCT 7 cut(s) 19, 69, 139, 268, 349, 563, 622
AluI AGCT 7 cut(s) 19, 69, 139, 268, 349, 563, 622
AlwI GGATC 2 cut(s) 444, 457
AoxI GGCC 2 cut(s) 149, 238
ApeKI GCWGC 2 cut(s) 69, 253
ApoI RAATTY 3 cut(s) 22, 230, 407
ArsI GACNNNNNNTTYG 2 cut(s) 94, 126
AseI ATTAAT 1 cut(s) 518
AsuHPI GGTGA 1 cut(s) 647
BamHI GGATCC 1 cut(s) 449
BauI CACGAG 1 cut(s) 134
BbsI GAAGAC 1 cut(s) 52
BbvCI CCTCAGC 1 cut(s) 65
BbvI GCAGC 2 cut(s) 56, 265
BccI CCATC 3 cut(s) 362, 371, 626
BceAI ACGGC 1 cut(s) 253
BcgI CGANNNNNNTGC 2 cut(s) 395, 429
BciT130I CCWGG 2 cut(s) 28, 78
BciVI GTATCC 2 cut(s) 304, 560
BclI TGATCA 1 cut(s) 664
BfaI CTAG 1 cut(s) 509
BfuI GTATCC 2 cut(s) 304, 560
BisI GCNGC 2 cut(s) 70, 254
BlsI GCNGC 2 cut(s) 71, 255
Bme1390I CCNGG 2 cut(s) 28, 78
BmiI GGNNCC 2 cut(s) 33, 451
BmrFI CCNGG 2 cut(s) 28, 78
BmsI GCATC 1 cut(s) 71
BpiI GAAGAC 1 cut(s) 52
BpmI CTGGAG 1 cut(s) 573
Bpu10I CCTNAGC 1 cut(s) 65
BsaBI GATNNNNATC 1 cut(s) 454
BsaHI GRCGYC 1 cut(s) 204
BsaJI CCNNGG 1 cut(s) 27
Bse1I ACTGG 2 cut(s) 451, 581
Bse8I GATNNNNATC 1 cut(s) 454
BseBI CCWGG 2 cut(s) 28, 78
BseDI CCNNGG 1 cut(s) 27
BseGI GGATG 2 cut(s) 86, 655
BseJI GATNNNNATC 1 cut(s) 454
BseMII CTCAG 1 cut(s) 79
BseNI ACTGG 2 cut(s) 451, 581
BseRI GAGGAG 3 cut(s) 320, 353, 570
BseXI GCAGC 2 cut(s) 56, 265
BshFI GGCC 2 cut(s) 151, 240
BsiSI CCGG 2 cut(s) 200, 388
BsnI GGCC 2 cut(s) 151, 240
Bsp143I GATC 4 cut(s) 36, 178, 449, 664
BspACI CCGC 1 cut(s) 289
BspANI GGCC 2 cut(s) 151, 240
BspCNI CTCAG 1 cut(s) 78
BspHI TCATGA 1 cut(s) 373
BspLI GGNNCC 2 cut(s) 33, 451
BspPI GGATC 2 cut(s) 444, 457
BsrI ACTGG 2 cut(s) 451, 581
BssECI CCNNGG 1 cut(s) 27
BssMI GATC 4 cut(s) 36, 178, 449, 664
BssNI GRCGYC 1 cut(s) 204
BssSI CACGAG 1 cut(s) 134
Bst2BI CACGAG 1 cut(s) 134
Bst2UI CCWGG 2 cut(s) 28, 78
Bst4CI ACNGT 3 cut(s) 157, 193, 543
BstACI GRCGYC 1 cut(s) 204
BstC8I GCNNGC 1 cut(s) 131
BstDEI CTNAG 1 cut(s) 65
BstF5I GGATG 2 cut(s) 86, 655
BstKTI GATC 4 cut(s) 39, 181, 452, 667
BstMBI GATC 4 cut(s) 36, 178, 449, 664
BstNI CCWGG 2 cut(s) 28, 78
BstSCI CCNGG 2 cut(s) 26, 76
BstV1I GCAGC 2 cut(s) 56, 265
BstV2I GAAGAC 1 cut(s) 52
BstX2I RGATCY 1 cut(s) 449
BstYI RGATCY 1 cut(s) 449
BsuI GTATCC 2 cut(s) 304, 560
BsuRI GGCC 2 cut(s) 151, 240
BtsCI GGATG 2 cut(s) 86, 655
BtsIMutI CAGTG 2 cut(s) 539, 574
Cac8I GCNNGC 1 cut(s) 131
CciI TCATGA 1 cut(s) 373
CseI GACGC 2 cut(s) 46, 112
CviAII CATG 3 cut(s) 374, 473, 668
DdeI CTNAG 1 cut(s) 65
DpnI GATC 4 cut(s) 38, 180, 451, 666
DpnII GATC 4 cut(s) 36, 178, 449, 664
EaeI YGGCCR 1 cut(s) 238
EcoRI GAATTC 2 cut(s) 22, 407
EcoRII CCWGG 2 cut(s) 26, 76
EcoT22I ATGCAT 1 cut(s) 86
FaeI CATG 3 cut(s) 377, 476, 671
FaiI YATR 9 cut(s) 86, 124, 228, 303, 375, 474, 501, 669, 676
FalI AAGNNNNNCTT 2 cut(s) 206, 238
FatI CATG 3 cut(s) 373, 472, 667
FbaI TGATCA 1 cut(s) 664
Fnu4HI GCNGC 2 cut(s) 70, 254
FokI GGATG 2 cut(s) 93, 662
Fsp4HI GCNGC 2 cut(s) 70, 254
FspBI CTAG 1 cut(s) 509
GluI GCNGC 2 cut(s) 70, 254
GsuI CTGGAG 1 cut(s) 573
HaeIII GGCC 2 cut(s) 151, 240
HapII CCGG 2 cut(s) 200, 388
HgaI GACGC 2 cut(s) 46, 112
Hin1I GRCGYC 1 cut(s) 204
Hin1II CATG 3 cut(s) 377, 476, 671
HinfI GANTC 5 cut(s) 7, 13, 110, 245, 393
HpaII CCGG 2 cut(s) 200, 388
HphI GGTGA 1 cut(s) 647
Hpy188I TCNGA 6 cut(s) 12, 36, 183, 325, 361, 433
Hpy188III TCNNGA 1 cut(s) 374
Hpy99I CGWCG 1 cut(s) 157
HpyAV CCTTC 4 cut(s) 61, 211, 266, 366
HpyCH4III ACNGT 3 cut(s) 157, 193, 543
HpyCH4IV ACGT 3 cut(s) 204, 330, 419
HpyCH4V TGCA 4 cut(s) 84, 171, 416, 499
HpyF3I CTNAG 1 cut(s) 65
HpySE526I ACGT 3 cut(s) 204, 330, 419
Hsp92I GRCGYC 1 cut(s) 204
Hsp92II CATG 3 cut(s) 377, 476, 671
Ksp22I TGATCA 1 cut(s) 664
Kzo9I GATC 4 cut(s) 36, 178, 449, 664
LmnI GCTCC 1 cut(s) 346
Lsp1109I GCAGC 2 cut(s) 56, 265
LweI GCATC 1 cut(s) 71
MaeI CTAG 1 cut(s) 509
MaeII ACGT 3 cut(s) 204, 330, 419
MaeIII GTNAC 1 cut(s) 100
MalI GATC 4 cut(s) 38, 180, 451, 666
MboI GATC 4 cut(s) 36, 178, 449, 664
MboII GAAGA 4 cut(s) 52, 488, 598, 641
MflI RGATCY 1 cut(s) 449
MluCI AATT 4 cut(s) 22, 230, 407, 653
MlyI GAGTC 1 cut(s) 254
MnlI CCTC 7 cut(s) 56, 74, 298, 301, 331, 548, 640
Mph1103I ATGCAT 1 cut(s) 86
MseI TTAA 2 cut(s) 518, 617
MspA1I CMGCKG 2 cut(s) 19, 69
MspI CCGG 2 cut(s) 200, 388
MspR9I CCNGG 2 cut(s) 28, 78
MvaI CCWGG 2 cut(s) 28, 78
NdeII GATC 4 cut(s) 36, 178, 449, 664
NlaIII CATG 3 cut(s) 377, 476, 671
NlaIV GGNNCC 2 cut(s) 33, 451
NmuCI GTSAC 1 cut(s) 100
NsiI ATGCAT 1 cut(s) 86
PagI TCATGA 1 cut(s) 373
PcsI WCGNNNNNNNCGW 3 cut(s) 54, 110, 528
PfeI GAWTC 4 cut(s) 7, 13, 110, 393
PfoI TCCNGGA 1 cut(s) 76
PkrI GCNGC 2 cut(s) 71, 255
PleI GAGTC 1 cut(s) 253
PpsI GAGTC 1 cut(s) 253
PshBI ATTAAT 1 cut(s) 518
Psp1406I AACGTT 1 cut(s) 419
Psp6I CCWGG 2 cut(s) 26, 76
PspGI CCWGG 2 cut(s) 26, 76
PspN4I GGNNCC 2 cut(s) 33, 451
PsuI RGATCY 1 cut(s) 449
PvuII CAGCTG 2 cut(s) 19, 69
SaqAI TTAA 2 cut(s) 518, 617
SatI GCNGC 2 cut(s) 70, 254
Sau3AI GATC 4 cut(s) 36, 178, 449, 664
SchI GAGTC 1 cut(s) 254
ScrFI CCNGG 2 cut(s) 28, 78
SfaNI GCATC 1 cut(s) 71
Sse9I AATT 4 cut(s) 22, 230, 407, 653
SsiI CCGC 1 cut(s) 289
SspI AATATT 1 cut(s) 384
SspMI CTAG 1 cut(s) 509
StyD4I CCNGG 2 cut(s) 26, 76
TaaI ACNGT 3 cut(s) 157, 193, 543
TaiI ACGT 3 cut(s) 207, 333, 422
TaqI TCGA 3 cut(s) 113, 270, 366
TasI AATT 4 cut(s) 22, 230, 407, 653
TfiI GAWTC 4 cut(s) 7, 13, 110, 393
Tru1I TTAA 2 cut(s) 518, 617
Tru9I TTAA 2 cut(s) 518, 617
TscAI CASTG 2 cut(s) 546, 581
TseFI GTSAC 1 cut(s) 100
TseI GCWGC 2 cut(s) 69, 253
Tsp45I GTSAC 1 cut(s) 100
TspDTI ATGAA 2 cut(s) 489, 666
TspRI CASTG 2 cut(s) 546, 581
VspI ATTAAT 1 cut(s) 518
XapI RAATTY 3 cut(s) 22, 230, 407
XspI CTAG 1 cut(s) 509
ZraI GACGTC 1 cut(s) 205
Zsp2I ATGCAT 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.