Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr2

Orthogroup ID

OG0010809

Physical Location & Seq

Genomic Coordinates Forward (+)

12689625 .. 12691623

Gene Structure 1999 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw2G012260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 681 bp

ATGGCAAGTGGTTTTGGGGAATCAACGAGCGTGCCGCCCCAAAGCCAGTCTTGCTCGGGGAATAATGCCAATGACGCAGGGGATTTCGAGTGCAACATCTGCTTCGAATTGGCGCAAGATCCGATCATAACTCTTTGCGGTCATCTCTTCTGCTGGCCTTGTCTCTACAGATGGCTCCACCATCACTCACATTGCCAAGAATGCCCGGTGTGCAAGGCCCTCGTACAGGAAGACAAGTTGGTTCCTCTTTATGGCAGGGGCAAGACACAGACTGATCCAAGATCAAAATCGTATCCGGGTGTCAATATTCCTAATCGCCCTGCTGGGCAGAGGCCTGAGACTGCTCCTCCCCCGGAGAACAATCAGTTTCCCAATTACAGCTTTGGGTTTATGGGAGGATTTATGCCAACGGCAACTGCCAGGATTGGTAACTTCACTTTGGCCACTGCATTTGGTGGTCTGATACCCTCATTGCTTAATATTCATTATCATGGGTTTCCAGATGCTACTGTATATGGAACAACTTCTGGTTTTCCTTACGGGTTCAGCAGTTCATTTCATGGGGGCCATGCTCATGGGTTCCCTCAGCCAGCAACTCAAAGGCAGCAGGTTGATAATGTGTTGAAGAATCTGTTTTTGTTGATTGGTGTATTTGTCATTGCTGCGCTGATTTTTTGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006928 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016477 GO:0016567 GO:0016740 GO:0018996 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030054 GO:0030154 GO:0030163 GO:0031984 GO:0032446 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0040011 GO:0040039 GO:0042175 GO:0042221 GO:0042303 GO:0042692 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043292 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044449 GO:0044464 GO:0048468 GO:0048856 GO:0048869 GO:0048870 GO:0050896 GO:0051146 GO:0051179 GO:0051603 GO:0051674 GO:0051716 GO:0051788 GO:0055001 GO:0055002 GO:0055120 GO:0061061 GO:0061630 GO:0061659 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0099080 GO:0099081 GO:0099512 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2 zf-C3HC4_3

Protein Analysis

226

Amino Acids

24.6

Weight (kDa)

6.53

Isoelectric Point (pI)

54.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	29 - 76	1.5e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	30 - 71	3e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	30 - 72	2.5e-07	Ring finger domain
zf-RING_5	PF14634	30 - 72	3.8e-06	zinc-RING finger domain
zf-RING_UBOX	PF13445	31 - 69	2.8e-07	RING-type zinc-finger
zf-C3HC4	PF00097	31 - 71	4.8e-07	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0010809)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G23780 AT2G23780 AT2G23780
fragaria_vesca	FvH4_1g14110
malus_domestica	MD02G1155200.v1.1
prunus_persica	Prupe.7G148100_v2.0.a1 Prupe.7G148100_v2.0.a1
pyrus_communis	pycom02g12290 pycom15g23390
rosa_chinensis	RchiOBHm_Chr2g0102791
rosa_laevigata	RLG00000017179
rosa_roxburghii	Rroxscaffold_2G00140320
rosa_rugosa	Rorug02G0109400 Rorug02G0109500 Rorug02G0109500
rosa_samantha	Rh2AG157900 Rh2BG164400 Rh2CG164100 Rh2DG163200
rosa_wichuraiana	Rw2G012260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	598
AciI	CCGC	2 cut(s)	35, 138
AclWI	GGATC	2 cut(s)	113, 269
AcoI	YGGCCR	1 cut(s)	441
AfaI	GTAC	1 cut(s)	225
AfiI	CCNNNNNNNGG	2 cut(s)	226, 251
AgsI	TTSAA	1 cut(s)	625
AjnI	CCWGG	1 cut(s)	419
AluBI	AGCT	1 cut(s)	381
AluI	AGCT	1 cut(s)	381
Alw26I	GTCTC	2 cut(s)	167, 332
AlwI	GGATC	2 cut(s)	113, 269
Ama87I	CYCGRG	1 cut(s)	55
AoxI	GGCC	5 cut(s)	155, 216, 332, 441, 565
ApeKI	GCWGC	2 cut(s)	604, 662
Asp700I	GAANNNNTTC	1 cut(s)	523
AspLEI	GCGC	2 cut(s)	115, 667
AspS9I	GGNCC	2 cut(s)	217, 565
AsuC2I	CCSGG	3 cut(s)	206, 297, 353
AsuII	TTCGAA	1 cut(s)	105
AvaI	CYCGRG	1 cut(s)	55
BalI	TGGCCA	1 cut(s)	443
BbsI	GAAGAC	1 cut(s)	237
BbvCI	CCTCAGC	1 cut(s)	585
BbvI	GCAGC	2 cut(s)	616, 649
BccI	CCATC	2 cut(s)	165, 189
BceAI	ACGGC	1 cut(s)	426
BcgI	CGANNNNNNTGC	2 cut(s)	202, 236
BciT130I	CCWGG	1 cut(s)	421
BciVI	GTATCC	1 cut(s)	303
BcnI	CCSGG	3 cut(s)	206, 297, 353
BcoDI	GTCTC	2 cut(s)	167, 332
BfmI	CTRYAG	1 cut(s)	166
BfuAI	ACCTGC	1 cut(s)	598
BfuI	GTATCC	1 cut(s)	303
BisI	GCNGC	3 cut(s)	35, 605, 663
BlsI	GCNGC	3 cut(s)	36, 606, 664
Bme1390I	CCNGG	4 cut(s)	206, 297, 353, 421
BmeT110I	CYCGRG	1 cut(s)	55
BmgT120I	GGNCC	2 cut(s)	217, 565
BmiI	GGNNCC	4 cut(s)	176, 243, 566, 581
BmrFI	CCNGG	4 cut(s)	206, 297, 353, 421
BmsI	GCATC	1 cut(s)	493
BpiI	GAAGAC	1 cut(s)	237
Bpu10I	CCTNAGC	1 cut(s)	585
Bpu14I	TTCGAA	1 cut(s)	105
BpuMI	CCSGG	3 cut(s)	206, 297, 353
BsaBI	GATNNNNATC	1 cut(s)	286
BsaJI	CCNNGG	1 cut(s)	351
BsaXI	ACNNNNNCTCC	2 cut(s)	331, 361
Bsc4I	CCNNNNNNNGG	2 cut(s)	226, 251
Bse1I	ACTGG	1 cut(s)	46
Bse3DI	GCAATG	3 cut(s)	190, 470, 657
Bse8I	GATNNNNATC	1 cut(s)	286
BseBI	CCWGG	1 cut(s)	421
BseDI	CCNNGG	1 cut(s)	351
BseJI	GATNNNNATC	1 cut(s)	286
BseLI	CCNNNNNNNGG	2 cut(s)	226, 251
BseMI	GCAATG	3 cut(s)	190, 470, 657
BseMII	CTCAG	2 cut(s)	327, 599
BseNI	ACTGG	1 cut(s)	46
BseRI	GAGGAG	1 cut(s)	336
BseXI	GCAGC	2 cut(s)	616, 649
BseYI	CCCAGC	1 cut(s)	323
BshFI	GGCC	5 cut(s)	157, 218, 334, 443, 567
BsiHKCI	CYCGRG	1 cut(s)	55
BsiSI	CCGG	3 cut(s)	206, 296, 353
BslI	CCNNNNNNNGG	2 cut(s)	226, 251
BsmAI	GTCTC	2 cut(s)	167, 332
BsmI	GAATGC	1 cut(s)	206
BsnI	GGCC	5 cut(s)	157, 218, 334, 443, 567
BsoBI	CYCGRG	1 cut(s)	55
Bsp119I	TTCGAA	1 cut(s)	105
Bsp143I	GATC	4 cut(s)	118, 123, 274, 281
BspACI	CCGC	2 cut(s)	35, 138
BspANI	GGCC	5 cut(s)	157, 218, 334, 443, 567
BspCNI	CTCAG	2 cut(s)	328, 598
BspLI	GGNNCC	4 cut(s)	176, 243, 566, 581
BspMI	ACCTGC	1 cut(s)	598
BspPI	GGATC	2 cut(s)	113, 269
BspT104I	TTCGAA	1 cut(s)	105
BsrDI	GCAATG	3 cut(s)	190, 470, 657
BsrI	ACTGG	1 cut(s)	46
BssECI	CCNNGG	1 cut(s)	351
BssMI	GATC	4 cut(s)	118, 123, 274, 281
Bst2UI	CCWGG	1 cut(s)	421
Bst4CI	ACNGT	1 cut(s)	511
Bst6I	CTCTTC	1 cut(s)	152
BstAPI	GCANNNNNTGC	1 cut(s)	99
BstBI	TTCGAA	1 cut(s)	105
BstC8I	GCNNGC	3 cut(s)	32, 155, 591
BstDEI	CTNAG	2 cut(s)	336, 585
BstENI	CCTNNNNNAGG	1 cut(s)	224
BstHHI	GCGC	2 cut(s)	115, 667
BstKTI	GATC	4 cut(s)	121, 126, 277, 284
BstMAI	GTCTC	2 cut(s)	167, 332
BstMBI	GATC	4 cut(s)	118, 123, 274, 281
BstMWI	GCNNNNNNNGC	5 cut(s)	51, 74, 99, 201, 210
BstNI	CCWGG	1 cut(s)	421
BstSCI	CCNGG	4 cut(s)	204, 295, 351, 419
BstSFI	CTRYAG	1 cut(s)	166
BstV1I	GCAGC	2 cut(s)	616, 649
BstV2I	GAAGAC	1 cut(s)	237
BstX2I	RGATCY	1 cut(s)	118
BstXI	CCANNNNNNTGG	1 cut(s)	575
BstYI	RGATCY	1 cut(s)	118
BsuI	GTATCC	1 cut(s)	303
BsuRI	GGCC	5 cut(s)	157, 218, 334, 443, 567
BtsI	GCAGTG	1 cut(s)	444
BtsIMutI	CAGTG	1 cut(s)	444
BveI	ACCTGC	1 cut(s)	598
Cac8I	GCNNGC	3 cut(s)	32, 155, 591
CfoI	GCGC	2 cut(s)	115, 667
Cfr13I	GGNCC	2 cut(s)	217, 565
CseI	GACGC	1 cut(s)	83
Csp6I	GTAC	1 cut(s)	224
CspCI	CAANNNNNGTGG	2 cut(s)	433, 468
CviAII	CATG	4 cut(s)	491, 560, 569, 575
CviJI	RGCY	9 cut(s)	45, 157, 175, 218, 334, 381, 443, 567, 589
CviKI_1	RGCY	9 cut(s)	45, 157, 175, 218, 334, 381, 443, 567, 589
CviQI	GTAC	1 cut(s)	224
DdeI	CTNAG	2 cut(s)	336, 585
DpnI	GATC	4 cut(s)	120, 125, 276, 283
DpnII	GATC	4 cut(s)	118, 123, 274, 281
EaeI	YGGCCR	1 cut(s)	441
Eam1104I	CTCTTC	1 cut(s)	152
EarI	CTCTTC	1 cut(s)	152
Eco147I	AGGCCT	1 cut(s)	334
Eco88I	CYCGRG	1 cut(s)	55
EcoNI	CCTNNNNNAGG	1 cut(s)	224
EcoO109I	RGGNCCY	1 cut(s)	217
EcoRII	CCWGG	1 cut(s)	419
FaeI	CATG	4 cut(s)	494, 563, 572, 578
FalI	AAGNNNNNCTT	2 cut(s)	34, 66
FatI	CATG	4 cut(s)	490, 559, 568, 574
Fnu4HI	GCNGC	3 cut(s)	35, 605, 663
Fsp4HI	GCNGC	3 cut(s)	35, 605, 663
GlaI	GCGC	2 cut(s)	114, 666
GluI	GCNGC	3 cut(s)	35, 605, 663
GsaI	CCCAGC	1 cut(s)	327
HaeIII	GGCC	5 cut(s)	157, 218, 334, 443, 567
HapII	CCGG	3 cut(s)	206, 296, 353
HgaI	GACGC	1 cut(s)	83
HhaI	GCGC	2 cut(s)	115, 667
Hin1II	CATG	4 cut(s)	494, 563, 572, 578
Hin6I	GCGC	2 cut(s)	113, 665
HinP1I	GCGC	2 cut(s)	113, 665
HinfI	GANTC	2 cut(s)	20, 628
HpaII	CCGG	3 cut(s)	206, 296, 353
Hpy188I	TCNGA	2 cut(s)	123, 462
Hpy188III	TCNNGA	1 cut(s)	500
HpyCH4III	ACNGT	1 cut(s)	511
HpyCH4V	TGCA	3 cut(s)	93, 213, 449
HpyF10VI	GCNNNNNNNGC	5 cut(s)	51, 74, 99, 201, 210
HpyF3I	CTNAG	2 cut(s)	336, 585
Hsp92II	CATG	4 cut(s)	494, 563, 572, 578
HspAI	GCGC	2 cut(s)	113, 665
Kzo9I	GATC	4 cut(s)	118, 123, 274, 281
LmnI	GCTCC	2 cut(s)	180, 349
Lsp1109I	GCAGC	2 cut(s)	616, 649
LweI	GCATC	1 cut(s)	493
MaeIII	GTNAC	1 cut(s)	428
MalI	GATC	4 cut(s)	120, 125, 276, 283
MboI	GATC	4 cut(s)	118, 123, 274, 281
MboII	GAAGA	3 cut(s)	139, 242, 637
MflI	RGATCY	1 cut(s)	118
MlsI	TGGCCA	1 cut(s)	443
MluCI	AATT	2 cut(s)	107, 373
MluNI	TGGCCA	1 cut(s)	443
MnlI	CCTC	7 cut(s)	230, 255, 324, 357, 389, 478, 594
Mox20I	TGGCCA	1 cut(s)	443
MroXI	GAANNNNTTC	1 cut(s)	523
MscI	TGGCCA	1 cut(s)	443
MseI	TTAA	1 cut(s)	477
MslI	CAYNNNNRTG	2 cut(s)	489, 573
Msp20I	TGGCCA	1 cut(s)	443
MspI	CCGG	3 cut(s)	206, 296, 353
MspR9I	CCNGG	4 cut(s)	206, 297, 353, 421
Mva1269I	GAATGC	1 cut(s)	206
MvaI	CCWGG	1 cut(s)	421
MwoI	GCNNNNNNNGC	5 cut(s)	51, 74, 99, 201, 210
NciI	CCSGG	3 cut(s)	206, 297, 353
NdeII	GATC	4 cut(s)	118, 123, 274, 281
NlaIII	CATG	4 cut(s)	494, 563, 572, 578
NlaIV	GGNNCC	4 cut(s)	176, 243, 566, 581
NspV	TTCGAA	1 cut(s)	105
PceI	AGGCCT	1 cut(s)	334
PctI	GAATGC	1 cut(s)	206
PdmI	GAANNNNTTC	1 cut(s)	523
PfeI	GAWTC	2 cut(s)	20, 628
PkrI	GCNGC	3 cut(s)	36, 606, 664
Psp6I	CCWGG	1 cut(s)	419
PspFI	CCCAGC	1 cut(s)	323
PspGI	CCWGG	1 cut(s)	419
PspN4I	GGNNCC	4 cut(s)	176, 243, 566, 581
PspPI	GGNCC	2 cut(s)	217, 565
PsuI	RGATCY	1 cut(s)	118
RsaI	GTAC	1 cut(s)	225
RsaNI	GTAC	1 cut(s)	224
RseI	CAYNNNNRTG	2 cut(s)	489, 573
SaqAI	TTAA	1 cut(s)	477
SatI	GCNGC	3 cut(s)	35, 605, 663
Sau3AI	GATC	4 cut(s)	118, 123, 274, 281
Sau96I	GGNCC	2 cut(s)	217, 565
ScrFI	CCNGG	4 cut(s)	206, 297, 353, 421
SetI	ASST	2 cut(s)	383, 612
SfaNI	GCATC	1 cut(s)	493
SfcI	CTRYAG	1 cut(s)	166
SfuI	TTCGAA	1 cut(s)	105
SmiMI	CAYNNNNRTG	2 cut(s)	489, 573
Sse9I	AATT	2 cut(s)	107, 373
SseBI	AGGCCT	1 cut(s)	334
SsiI	CCGC	2 cut(s)	35, 138
SspI	AATATT	2 cut(s)	307, 481
StuI	AGGCCT	1 cut(s)	334
StyD4I	CCNGG	4 cut(s)	204, 295, 351, 419
TaaI	ACNGT	1 cut(s)	511
TaqI	TCGA	2 cut(s)	87, 105
TasI	AATT	2 cut(s)	107, 373
TauI	GCSGC	1 cut(s)	37
TfiI	GAWTC	2 cut(s)	20, 628
Tru1I	TTAA	1 cut(s)	477
Tru9I	TTAA	1 cut(s)	477
TscAI	CASTG	1 cut(s)	451
TseI	GCWGC	2 cut(s)	604, 662
TspDTI	ATGAA	3 cut(s)	473, 543, 548
TspRI	CASTG	1 cut(s)	451
XagI	CCTNNNNNAGG	1 cut(s)	224
XmnI	GAANNNNTTC	1 cut(s)	523

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.