Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0005870

Physical Location & Seq

Genomic Coordinates Reverse (-)

47800472 .. 47802077

Gene Structure 1606 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG261100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGGGCTTCCCAGTGGGTTACACAGAGGTCTTCTTCCCCAACCTCTTCCTCCACACCCTCTCTGTTTTGGGTTTCATCCGCAGCCTCATTTTCTCGCTCTTCCACTTTCTGGGCCTTTCCGATTTCCTCGAGACCGACGCGGGCGTCTGGCCTGAGACCCGGGCCCAGCTGCTGCCCGGGTGCCAGCCGCCTGCGTCGGTCCTCCTGATCCGGGAATTTCTCCCTGTGATCAGGTTTGAGGACATCGCCGGAGACCCGCCGGAGAGCTGCGCCGTCTGCCTGTACGAGTTCGAGGGCAGTGAGGAGATCAGGTGCTTGACGAATTGCAAGCACATTTTTCACCGGGCGTGTTTGGACCGTTGGATGGACCACGACCAGAAGACGTGTCCGCTTTGCCGGACGGCGTTTGTGCCTGAAGAGGCCAGCGAGGAGTTTAATCGACGGCTCTGGGCCGCCGCCGAGTCGGAGCTGGAGCTCCACCGTGATTTTTACAGTGAGTACAGTTCGGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010200 GO:0010243 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0032446 GO:0036211 GO:0042221 GO:0042493 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0046686 GO:0050896 GO:0051603 GO:0061630 GO:0061659 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

170

Amino Acids

19.56

Weight (kDa)

4.75

Isoelectric Point (pI)

61.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	89 - 133	2e-12	Ring finger domain
zf-RING_11	PF17123	90 - 118	6.6e-08	RING-like zinc finger
zf-RING_5	PF14634	90 - 134	1e-07	zinc-RING finger domain
zf-C3HC4_2	PF13923	90 - 132	1e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	90 - 132	1.3e-06	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	97 - 133	1.6e-06	RING-H2 zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0005870)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61460
fragaria_vesca	FvH4_5g02880 FvH4_7g14900
malus_domestica	MD01G1067800.v1.1 MD06G1088300.v1.1 MD07G1133100.v1.1 MD14G1109400.v1.1
prunus_persica	Prupe.2G174100_v2.0.a1 Prupe.5G104300_v2.0.a1
pyrus_communis	pycom14g10350
rosa_chinensis	RchiOBHm_Chr1g0356851 RchiOBHm_Chr7g0197001
rosa_laevigata	RLG00000003966 RLG00000028076
rosa_multiflora	Rmu_sc0003248.1_g000003
rosa_roxburghii	Rroxscaffold_3G00258740 Rroxscaffold_4G00299260
rosa_rugosa	Rorug07G0037000
rosa_samantha	Rh1AG266300 Rh1BG233700 Rh1CG249800 Rh1DG261100 Rh7AG162000 Rh7BG163900 Rh7CG170100 Rh7DG163200
rosa_wichuraiana	Rw1G023530 Rw7G014140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	143
AccB1I	GGYRCC	1 cut(s)	180
AccB7I	CCANNNNNTGG	1 cut(s)	109
AccII	CGCG	1 cut(s)	140
AciI	CCGC	7 cut(s)	79, 140, 188, 257, 389, 453, 456
AclWI	GGATC	1 cut(s)	202
AcsI	RAATTY	1 cut(s)	215
AcuI	CTGAAG	1 cut(s)	435
AcyI	GRCGYC	1 cut(s)	144
AfaI	GTAC	2 cut(s)	284, 500
AfiI	CCNNNNNNNGG	3 cut(s)	109, 211, 364
AflIII	ACRYGT	1 cut(s)	383
AjiI	CACGTC	1 cut(s)	384
AluBI	AGCT	4 cut(s)	169, 267, 469, 475
AluI	AGCT	4 cut(s)	169, 267, 469, 475
Alw21I	GWGCWC	1 cut(s)	477
Alw26I	GTCTC	3 cut(s)	125, 149, 246
AlwI	GGATC	1 cut(s)	202
AlwNI	CAGNNNCTG	1 cut(s)	172
Ama87I	CYCGRG	3 cut(s)	128, 159, 176
AoxI	GGCC	5 cut(s)	112, 149, 162, 420, 450
ApaI	GGGCCC	1 cut(s)	166
ApeKI	GCWGC	4 cut(s)	81, 169, 172, 267
ApoI	RAATTY	1 cut(s)	215
AspLEI	GCGC	1 cut(s)	272
AspS9I	GGNCC	7 cut(s)	112, 162, 163, 199, 355, 367, 450
AsuC2I	CCSGG	6 cut(s)	160, 161, 177, 178, 212, 344
AsuHPI	GGTGA	1 cut(s)	332
AvaI	CYCGRG	3 cut(s)	128, 159, 176
AvaII	GGWCC	3 cut(s)	199, 355, 367
BaeGI	GKGCMC	1 cut(s)	166
BanI	GGYRCC	1 cut(s)	180
BanII	GRGCYC	2 cut(s)	166, 477
BbsI	GAAGAC	2 cut(s)	22, 386
Bbv12I	GWGCWC	1 cut(s)	477
BbvI	GCAGC	4 cut(s)	93, 156, 159, 254
BccI	CCATC	1 cut(s)	358
BceAI	ACGGC	3 cut(s)	257, 417, 458
BclI	TGATCA	1 cut(s)	228
BcnI	CCSGG	6 cut(s)	160, 161, 177, 178, 212, 344
BcoDI	GTCTC	3 cut(s)	125, 149, 246
BisI	GCNGC	7 cut(s)	82, 170, 173, 188, 268, 453, 456
BlsI	GCNGC	7 cut(s)	83, 171, 174, 189, 269, 454, 457
Bme1390I	CCNGG	6 cut(s)	160, 161, 177, 178, 212, 344
Bme18I	GGWCC	3 cut(s)	199, 355, 367
BmeT110I	CYCGRG	3 cut(s)	128, 159, 176
BmgBI	CACGTC	1 cut(s)	384
BmgT120I	GGNCC	7 cut(s)	112, 162, 163, 199, 355, 367, 450
BmiI	GGNNCC	2 cut(s)	164, 182
BmrFI	CCNGG	6 cut(s)	160, 161, 177, 178, 212, 344
BmrI	ACTGGG	1 cut(s)	5
BmuI	ACTGGG	1 cut(s)	5
BpiI	GAAGAC	2 cut(s)	22, 386
BpmI	CTGGAG	1 cut(s)	491
BpuMI	CCSGG	6 cut(s)	160, 161, 177, 178, 212, 344
BsaHI	GRCGYC	1 cut(s)	144
BsaI	GGTCTC	3 cut(s)	125, 149, 246
BsaJI	CCNNGG	2 cut(s)	159, 176
BsaXI	ACNNNNNCTCC	2 cut(s)	296, 326
Bsc4I	CCNNNNNNNGG	3 cut(s)	109, 211, 364
Bse1I	ACTGG	1 cut(s)	11
BseDI	CCNNGG	2 cut(s)	159, 176
BseGI	GGATG	2 cut(s)	75, 369
BseLI	CCNNNNNNNGG	3 cut(s)	109, 211, 364
BseMII	CTCAG	1 cut(s)	144
BseNI	ACTGG	1 cut(s)	11
BseRI	GAGGAG	2 cut(s)	317, 443
BseSI	GKGCMC	1 cut(s)	166
BseXI	GCAGC	4 cut(s)	93, 156, 159, 254
BseYI	CCCAGC	1 cut(s)	165
Bsh1236I	CGCG	1 cut(s)	140
BshFI	GGCC	5 cut(s)	114, 151, 164, 422, 452
BshNI	GGYRCC	1 cut(s)	180
BsiHKAI	GWGCWC	1 cut(s)	477
BsiHKCI	CYCGRG	3 cut(s)	128, 159, 176
BsiSI	CCGG	7 cut(s)	160, 177, 211, 249, 260, 343, 397
BslI	CCNNNNNNNGG	3 cut(s)	109, 211, 364
BsmAI	GTCTC	3 cut(s)	125, 149, 246
BsnI	GGCC	5 cut(s)	114, 151, 164, 422, 452
Bso31I	GGTCTC	3 cut(s)	125, 149, 246
BsoBI	CYCGRG	3 cut(s)	128, 159, 176
Bsp120I	GGGCCC	1 cut(s)	162
Bsp1286I	GDGCHC	2 cut(s)	166, 477
Bsp143I	GATC	3 cut(s)	207, 228, 306
BspACI	CCGC	7 cut(s)	79, 140, 188, 257, 389, 453, 456
BspANI	GGCC	5 cut(s)	114, 151, 164, 422, 452
BspCNI	CTCAG	1 cut(s)	145
BspFNI	CGCG	1 cut(s)	140
BspLI	GGNNCC	2 cut(s)	164, 182
BspPI	GGATC	1 cut(s)	202
BspQI	GCTCTTC	1 cut(s)	104
BspT107I	GGYRCC	1 cut(s)	180
BspTNI	GGTCTC	3 cut(s)	125, 149, 246
BsrI	ACTGG	1 cut(s)	11
BssECI	CCNNGG	2 cut(s)	159, 176
BssMI	GATC	3 cut(s)	207, 228, 306
BssNI	GRCGYC	1 cut(s)	144
Bst4CI	ACNGT	4 cut(s)	359, 482, 494, 503
Bst6I	CTCTTC	3 cut(s)	50, 104, 411
BstACI	GRCGYC	1 cut(s)	144
BstC8I	GCNNGC	5 cut(s)	142, 185, 192, 329, 424
BstDEI	CTNAG	1 cut(s)	153
BstF5I	GGATG	2 cut(s)	75, 369
BstFNI	CGCG	1 cut(s)	140
BstHHI	GCGC	1 cut(s)	272
BstKTI	GATC	3 cut(s)	210, 231, 309
BstMAI	GTCTC	3 cut(s)	125, 149, 246
BstMBI	GATC	3 cut(s)	207, 228, 306
BstMWI	GCNNNNNNNGC	1 cut(s)	276
BstSCI	CCNGG	6 cut(s)	158, 159, 175, 176, 210, 342
BstSLI	GKGCMC	1 cut(s)	166
BstUI	CGCG	1 cut(s)	140
BstV1I	GCAGC	4 cut(s)	93, 156, 159, 254
BstV2I	GAAGAC	2 cut(s)	22, 386
BsuRI	GGCC	5 cut(s)	114, 151, 164, 422, 452
BtgZI	GCGATG	1 cut(s)	229
BtrI	CACGTC	1 cut(s)	384
BtsCI	GGATG	2 cut(s)	75, 369
BtsI	GCAGTG	1 cut(s)	304
BtsIMutI	CAGTG	3 cut(s)	18, 304, 499
Cac8I	GCNNGC	5 cut(s)	142, 185, 192, 329, 424
CaiI	CAGNNNCTG	1 cut(s)	172
CfoI	GCGC	1 cut(s)	272
Cfr13I	GGNCC	7 cut(s)	112, 162, 163, 199, 355, 367, 450
Cfr9I	CCCGGG	2 cut(s)	159, 176
CseI	GACGC	3 cut(s)	133, 146, 183
Csp6I	GTAC	2 cut(s)	283, 499
CviQI	GTAC	2 cut(s)	283, 499
DdeI	CTNAG	1 cut(s)	153
DpnI	GATC	3 cut(s)	209, 230, 308
DpnII	GATC	3 cut(s)	207, 228, 306
DrdI	GACNNNNNNGTC	1 cut(s)	143
DseDI	GACNNNNNNGTC	1 cut(s)	143
Eam1104I	CTCTTC	3 cut(s)	50, 104, 411
EarI	CTCTTC	3 cut(s)	50, 104, 411
Ecl136II	GAGCTC	1 cut(s)	475
Eco24I	GRGCYC	2 cut(s)	166, 477
Eco31I	GGTCTC	3 cut(s)	125, 149, 246
Eco47I	GGWCC	3 cut(s)	199, 355, 367
Eco53kI	GAGCTC	1 cut(s)	475
Eco57I	CTGAAG	1 cut(s)	435
Eco88I	CYCGRG	3 cut(s)	128, 159, 176
EcoICRI	GAGCTC	1 cut(s)	475
EcoT38I	GRGCYC	2 cut(s)	166, 477
FauI	CCCGC	2 cut(s)	133, 264
FbaI	TGATCA	1 cut(s)	228
Fnu4HI	GCNGC	7 cut(s)	82, 170, 173, 188, 268, 453, 456
FokI	GGATG	2 cut(s)	62, 376
FriOI	GRGCYC	2 cut(s)	166, 477
Fsp4HI	GCNGC	7 cut(s)	82, 170, 173, 188, 268, 453, 456
GlaI	GCGC	1 cut(s)	271
GluI	GCNGC	7 cut(s)	82, 170, 173, 188, 268, 453, 456
GsaI	CCCAGC	1 cut(s)	169
GsuI	CTGGAG	1 cut(s)	491
HaeIII	GGCC	5 cut(s)	114, 151, 164, 422, 452
HapII	CCGG	7 cut(s)	160, 177, 211, 249, 260, 343, 397
HgaI	GACGC	3 cut(s)	133, 146, 183
HhaI	GCGC	1 cut(s)	272
Hin1I	GRCGYC	1 cut(s)	144
Hin6I	GCGC	1 cut(s)	270
HinP1I	GCGC	1 cut(s)	270
HinfI	GANTC	1 cut(s)	461
HpaII	CCGG	7 cut(s)	160, 177, 211, 249, 260, 343, 397
HphI	GGTGA	1 cut(s)	332
Hpy188I	TCNGA	3 cut(s)	121, 466, 512
Hpy188III	TCNNGA	2 cut(s)	130, 205
Hpy99I	CGWCG	3 cut(s)	140, 199, 444
HpyCH4III	ACNGT	4 cut(s)	359, 482, 494, 503
HpyCH4IV	ACGT	1 cut(s)	383
HpyCH4V	TGCA	1 cut(s)	327
HpyF10VI	GCNNNNNNNGC	1 cut(s)	276
HpyF3I	CTNAG	1 cut(s)	153
HpySE526I	ACGT	1 cut(s)	383
Hsp92I	GRCGYC	1 cut(s)	144
HspAI	GCGC	1 cut(s)	270
Ksp22I	TGATCA	1 cut(s)	228
Kzo9I	GATC	3 cut(s)	207, 228, 306
LguI	GCTCTTC	1 cut(s)	104
LmnI	GCTCC	3 cut(s)	466, 472, 480
Lsp1109I	GCAGC	4 cut(s)	93, 156, 159, 254
MaeII	ACGT	1 cut(s)	383
MaeIII	GTNAC	1 cut(s)	17
MalI	GATC	3 cut(s)	209, 230, 308
MboI	GATC	3 cut(s)	207, 228, 306
MboII	GAAGA	6 cut(s)	22, 25, 37, 91, 391, 428
MhlI	GDGCHC	2 cut(s)	166, 477
MluCI	AATT	2 cut(s)	215, 322
MlyI	GAGTC	1 cut(s)	470
MmeI	TCCRAC	2 cut(s)	341, 444
MseI	TTAA	1 cut(s)	435
MspA1I	CMGCKG	1 cut(s)	169
MspI	CCGG	7 cut(s)	160, 177, 211, 249, 260, 343, 397
MspR9I	CCNGG	6 cut(s)	160, 161, 177, 178, 212, 344
MvnI	CGCG	1 cut(s)	140
MwoI	GCNNNNNNNGC	1 cut(s)	276
NciI	CCSGG	6 cut(s)	160, 161, 177, 178, 212, 344
NdeII	GATC	3 cut(s)	207, 228, 306
NlaIV	GGNNCC	2 cut(s)	164, 182
NmeAIII	GCCGAG	1 cut(s)	484
PaeR7I	CTCGAG	1 cut(s)	128
PciSI	GCTCTTC	1 cut(s)	104
PflMI	CCANNNNNTGG	1 cut(s)	109
PfoI	TCCNGGA	1 cut(s)	210
PkrI	GCNGC	7 cut(s)	83, 171, 174, 189, 269, 454, 457
PleI	GAGTC	1 cut(s)	469
PpsI	GAGTC	1 cut(s)	469
Psp124BI	GAGCTC	1 cut(s)	477
PspFI	CCCAGC	1 cut(s)	165
PspN4I	GGNNCC	2 cut(s)	164, 182
PspOMI	GGGCCC	1 cut(s)	162
PspPI	GGNCC	7 cut(s)	112, 162, 163, 199, 355, 367, 450
PstNI	CAGNNNCTG	1 cut(s)	172
PvuII	CAGCTG	1 cut(s)	169
RsaI	GTAC	2 cut(s)	284, 500
RsaNI	GTAC	2 cut(s)	283, 499
SacI	GAGCTC	1 cut(s)	477
SapI	GCTCTTC	1 cut(s)	104
SaqAI	TTAA	1 cut(s)	435
SatI	GCNGC	7 cut(s)	82, 170, 173, 188, 268, 453, 456
Sau3AI	GATC	3 cut(s)	207, 228, 306
Sau96I	GGNCC	7 cut(s)	112, 162, 163, 199, 355, 367, 450
SchI	GAGTC	1 cut(s)	470
ScrFI	CCNGG	6 cut(s)	160, 161, 177, 178, 212, 344
SduI	GDGCHC	2 cut(s)	166, 477
SetI	ASST	9 cut(s)	30, 45, 171, 236, 269, 314, 386, 471, 477
Sfr274I	CTCGAG	1 cut(s)	128
SinI	GGWCC	3 cut(s)	199, 355, 367
SlaI	CTCGAG	1 cut(s)	128
SmaI	CCCGGG	2 cut(s)	161, 178
SmlI	CTYRAG	1 cut(s)	128
SmoI	CTYRAG	1 cut(s)	128
Sse9I	AATT	2 cut(s)	215, 322
SsiI	CCGC	7 cut(s)	79, 140, 188, 257, 389, 453, 456
SstI	GAGCTC	1 cut(s)	477
StyD4I	CCNGG	6 cut(s)	158, 159, 175, 176, 210, 342
TaaI	ACNGT	4 cut(s)	359, 482, 494, 503
TaiI	ACGT	1 cut(s)	386
TaqI	TCGA	3 cut(s)	129, 291, 439
TaqII	GACCGA	3 cut(s)	149, 187, 496
TasI	AATT	2 cut(s)	215, 322
TatI	WGTACW	1 cut(s)	498
TauI	GCSGC	3 cut(s)	190, 455, 458
Tru1I	TTAA	1 cut(s)	435
Tru9I	TTAA	1 cut(s)	435
TscAI	CASTG	3 cut(s)	18, 304, 499
TseI	GCWGC	4 cut(s)	81, 169, 172, 267
TspDTI	ATGAA	1 cut(s)	64
TspMI	CCCGGG	2 cut(s)	159, 176
TspRI	CASTG	3 cut(s)	18, 304, 499
Van91I	CCANNNNNTGG	1 cut(s)	109
VpaK11BI	GGWCC	3 cut(s)	199, 355, 367
XapI	RAATTY	1 cut(s)	215
XhoI	CTCGAG	1 cut(s)	128
XmaI	CCCGGG	2 cut(s)	159, 176

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