Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0003563

Physical Location & Seq

Genomic Coordinates Reverse (-)

8570330 .. 8572773

Gene Structure 2444 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG106900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 603 bp

ATGCATCGCCGATTCCTCGGCAATACCACAGAGCTGCCCTACAACAATGGCAACCGTACAGCCGATTCCTACATAAGCGAGATGAATTTCGACACAAACATGGTCATCATCTTGGCGGCTCTCTTGTGTGCCCTTATATGCGCTCTTGGCTTGAACTCAATAGTGCGTTGCGCGCTTCGCTGCAGCCACAGGTTTACTCTTGAGACCCCGGAGCAGGCTGCAGCGCGTCTCGCGGCCACTGGGCTCAAGAAGAGTCATTTGAGGCAGATTCCGGTTGCGGTTTACGGTGAAGGGATTCATATTCCGGCGACCGAGTGTCCGATCTGTCTCGGAGAGTTTGAGGACGGCGAGAAGGTTAGGGTGCTGCCAAAATGTAACCACGGATTCCATGTGAGGTGCATAGACACTTGGCTTGTGTCACACTCATCATGCCCGAATTGTCGGCATTCACTGCTCGAGCAACAACAACCATCGAAGAAAACTAGAACTACTAGTCGTAGTACTACCAGTACTAGTTCTGAAGCGACAGAGAATTCATCACCAACAGCCAGTGAGTCTGACCAGGAAGGCAGAGTAGTTCTGGTGATTGATGAAGCAAGGTAA

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:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0032446 GO:0036211 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0051603 GO:0061630 GO:0061659 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

200

Amino Acids

22.04

Weight (kDa)

7.06

Isoelectric Point (pI)

48.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	105 - 148	1.3e-15	Ring finger domain
zf-RING_11	PF17123	105 - 134	1.4e-12	RING-like zinc finger
zf-C3HC4_2	PF13923	105 - 147	6.1e-10	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	105 - 148	2.6e-07	RING-H2 zinc finger domain
zf-C3HC4	PF00097	106 - 147	8.4e-07	Zinc finger, C3HC4 type (RING finger)

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: OG0003563)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10910 AT5G01880
fragaria_vesca	FvH4_6g09940 FvH4_7g25880 FvH4_7g25880
malus_domestica	MD01G1167200.v1.1 MD04G1174300.v1.1 MD07G1233300.v1.1 MD12G1187900.v1.1
prunus_persica	Prupe.2G263800_v2.0.a1 Prupe.6G293100_v2.0.a1
pyrus_communis	pycom01g18030 pycom04g15370
rosa_chinensis	RchiOBHm_Chr1g0372171 RchiOBHm_Chr3g0460531
rosa_laevigata	RLG00000024996 RLG00000026917
rosa_multiflora	Rmu_co8033776.1_g000001 Rmu_sc0001755.1_g000021 Rmu_sc0004267.1_g000002 Rmu_sc0006046.1_g000005
rosa_roxburghii	Rroxscaffold_4G00285170 Rroxscaffold_6G00419400
rosa_rugosa	Rorug01G0370100 Rorug03G0043300
rosa_samantha	Rh1AG378600 Rh1BG341900 Rh1CG355500 Rh1DG373000 Rh3AG101500 Rh3BG105500 Rh3CG107300 Rh3DG106900
rosa_wichuraiana	Rw1G033310 Rw3G008640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	173, 226, 233
AciI	CCGC	3 cut(s)	116, 233, 278
AcoI	YGGCCR	1 cut(s)	234
AcsI	RAATTY	2 cut(s)	85, 532
AcuI	CTGAAG	1 cut(s)	540
AfaI	GTAC	3 cut(s)	58, 502, 511
AfiI	CCNNNNNNNGG	1 cut(s)	214
AgsI	TTSAA	1 cut(s)	154
AhdI	GACNNNNNGTC	1 cut(s)	315
AhlI	ACTAGT	2 cut(s)	491, 512
AjnI	CCWGG	1 cut(s)	561
AluBI	AGCT	1 cut(s)	34
AluI	AGCT	1 cut(s)	34
Alw26I	GTCTC	3 cut(s)	197, 233, 332
Ama87I	CYCGRG	1 cut(s)	455
AoxI	GGCC	1 cut(s)	234
ApeKI	GCWGC	6 cut(s)	34, 180, 183, 218, 221, 364
ApoI	RAATTY	2 cut(s)	85, 532
Asp700I	GAANNNNTTC	1 cut(s)	294
AspLEI	GCGC	4 cut(s)	143, 173, 175, 226
AsuC2I	CCSGG	1 cut(s)	209
AsuHPI	GGTGA	3 cut(s)	299, 531, 595
AvaI	CYCGRG	1 cut(s)	455
BaeGI	GKGCMC	1 cut(s)	133
BanII	GRGCYC	1 cut(s)	246
BbvI	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
BccI	CCATC	1 cut(s)	478
BceAI	ACGGC	1 cut(s)	361
BciT130I	CCWGG	1 cut(s)	563
BcnI	CCSGG	1 cut(s)	209
BcoDI	GTCTC	3 cut(s)	197, 233, 332
BcuI	ACTAGT	2 cut(s)	491, 512
BfaI	CTAG	3 cut(s)	483, 492, 513
BfmI	CTRYAG	2 cut(s)	181, 219
BisI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
BlsI	GCNGC	8 cut(s)	36, 118, 182, 185, 220, 223, 235, 366
BmcAI	AGTACT	2 cut(s)	502, 511
Bme1390I	CCNGG	2 cut(s)	209, 563
BmeRI	GACNNNNNGTC	1 cut(s)	315
BmeT110I	CYCGRG	1 cut(s)	455
BmrFI	CCNGG	2 cut(s)	209, 563
BmrI	ACTGGG	1 cut(s)	249
BmsI	GCATC	1 cut(s)	13
BmuI	ACTGGG	1 cut(s)	249
BpuEI	CTTGAG	2 cut(s)	221, 230
BpuMI	CCSGG	1 cut(s)	209
BsaI	GGTCTC	1 cut(s)	197
BsaJI	CCNNGG	3 cut(s)	16, 207, 379
BsaWI	WCCGGW	1 cut(s)	271
Bsc4I	CCNNNNNNNGG	1 cut(s)	214
Bse1I	ACTGG	3 cut(s)	244, 507, 549
BseBI	CCWGG	1 cut(s)	563
BseDI	CCNNGG	3 cut(s)	16, 207, 379
BseLI	CCNNNNNNNGG	1 cut(s)	214
BseNI	ACTGG	3 cut(s)	244, 507, 549
BsePI	GCGCGC	1 cut(s)	171
BseSI	GKGCMC	1 cut(s)	133
BseXI	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
Bsh1236I	CGCG	3 cut(s)	173, 226, 233
Bsh1285I	CGRYCG	1 cut(s)	312
BshFI	GGCC	1 cut(s)	236
BsiEI	CGRYCG	1 cut(s)	312
BsiHKCI	CYCGRG	1 cut(s)	455
BsiSI	CCGG	3 cut(s)	209, 272, 305
BslI	CCNNNNNNNGG	1 cut(s)	214
BsmAI	GTCTC	3 cut(s)	197, 233, 332
BsmBI	CGTCTC	1 cut(s)	233
BsmI	GAATGC	1 cut(s)	445
BsnI	GGCC	1 cut(s)	236
Bso31I	GGTCTC	1 cut(s)	197
BsoBI	CYCGRG	1 cut(s)	455
Bsp1286I	GDGCHC	2 cut(s)	133, 246
Bsp143I	GATC	1 cut(s)	321
BspACI	CCGC	3 cut(s)	116, 233, 278
BspANI	GGCC	1 cut(s)	236
BspFNI	CGCG	3 cut(s)	173, 226, 233
BspMAI	CTGCAG	2 cut(s)	185, 223
BspTNI	GGTCTC	1 cut(s)	197
BsrI	ACTGG	3 cut(s)	244, 507, 549
BssECI	CCNNGG	3 cut(s)	16, 207, 379
BssHII	GCGCGC	1 cut(s)	171
BssMI	GATC	1 cut(s)	321
Bst2UI	CCWGG	1 cut(s)	563
Bst4CI	ACNGT	2 cut(s)	56, 287
Bst6I	CTCTTC	1 cut(s)	245
BstAPI	GCANNNNNTGC	1 cut(s)	451
BstC8I	GCNNGC	2 cut(s)	173, 216
BstDSI	CCRYGG	1 cut(s)	379
BstFNI	CGCG	3 cut(s)	173, 226, 233
BstHHI	GCGC	4 cut(s)	143, 173, 175, 226
BstKTI	GATC	1 cut(s)	324
BstMAI	GTCTC	3 cut(s)	197, 233, 332
BstMBI	GATC	1 cut(s)	321
BstMCI	CGRYCG	1 cut(s)	312
BstMWI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
BstNI	CCWGG	1 cut(s)	563
BstSCI	CCNGG	2 cut(s)	207, 561
BstSFI	CTRYAG	2 cut(s)	181, 219
BstSLI	GKGCMC	1 cut(s)	133
BstUI	CGCG	3 cut(s)	173, 226, 233
BstV1I	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
BsuRI	GGCC	1 cut(s)	236
BtgI	CCRYGG	1 cut(s)	379
BtsI	GCAGTG	1 cut(s)	449
BtsIMutI	CAGTG	3 cut(s)	237, 449, 556
Cac8I	GCNNGC	2 cut(s)	173, 216
CfoI	GCGC	4 cut(s)	143, 173, 175, 226
CseI	GACGC	1 cut(s)	215
Csp6I	GTAC	3 cut(s)	57, 501, 510
CviAII	CATG	3 cut(s)	100, 389, 429
CviQI	GTAC	3 cut(s)	57, 501, 510
DpnI	GATC	1 cut(s)	323
DpnII	GATC	1 cut(s)	321
DriI	GACNNNNNGTC	1 cut(s)	315
EaeI	YGGCCR	1 cut(s)	234
Eam1104I	CTCTTC	1 cut(s)	245
Eam1105I	GACNNNNNGTC	1 cut(s)	315
EarI	CTCTTC	1 cut(s)	245
Eco24I	GRGCYC	1 cut(s)	246
Eco31I	GGTCTC	1 cut(s)	197
Eco57I	CTGAAG	1 cut(s)	540
Eco88I	CYCGRG	1 cut(s)	455
EcoRI	GAATTC	1 cut(s)	532
EcoRII	CCWGG	1 cut(s)	561
EcoT22I	ATGCAT	1 cut(s)	6
EcoT38I	GRGCYC	1 cut(s)	246
Esp3I	CGTCTC	1 cut(s)	233
FaeI	CATG	3 cut(s)	103, 392, 432
FaiI	YATR	8 cut(s)	74, 101, 137, 139, 300, 390, 401, 430
FatI	CATG	3 cut(s)	99, 388, 428
Fnu4HI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
FriOI	GRGCYC	1 cut(s)	246
Fsp4HI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
FspBI	CTAG	3 cut(s)	483, 492, 513
GlaI	GCGC	4 cut(s)	142, 172, 174, 225
GluI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
HaeIII	GGCC	1 cut(s)	236
HapII	CCGG	3 cut(s)	209, 272, 305
HgaI	GACGC	1 cut(s)	215
HhaI	GCGC	4 cut(s)	143, 173, 175, 226
Hin1II	CATG	3 cut(s)	103, 392, 432
Hin6I	GCGC	4 cut(s)	141, 171, 173, 224
HinP1I	GCGC	4 cut(s)	141, 171, 173, 224
HinfI	GANTC	7 cut(s)	12, 65, 253, 268, 295, 384, 554
HpaII	CCGG	3 cut(s)	209, 272, 305
HphI	GGTGA	3 cut(s)	299, 531, 595
Hpy166II	GTNNAC	2 cut(s)	195, 283
Hpy188I	TCNGA	4 cut(s)	321, 332, 520, 559
Hpy188III	TCNNGA	2 cut(s)	200, 247
Hpy8I	GTNNAC	2 cut(s)	195, 283
HpyAV	CCTTC	3 cut(s)	284, 346, 560
HpyCH4III	ACNGT	2 cut(s)	56, 287
HpyCH4V	TGCA	4 cut(s)	4, 183, 221, 399
HpyF10VI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
Hsp92II	CATG	3 cut(s)	103, 392, 432
HspAI	GCGC	4 cut(s)	141, 171, 173, 224
Kzo9I	GATC	1 cut(s)	321
LmnI	GCTCC	1 cut(s)	211
Lsp1109I	GCAGC	6 cut(s)	21, 167, 195, 205, 233, 351
LweI	GCATC	1 cut(s)	13
MaeI	CTAG	3 cut(s)	483, 492, 513
MaeIII	GTNAC	2 cut(s)	374, 417
MalI	GATC	1 cut(s)	323
MboI	GATC	1 cut(s)	321
MboII	GAAGA	2 cut(s)	262, 487
MhlI	GDGCHC	2 cut(s)	133, 246
MluCI	AATT	3 cut(s)	85, 436, 532
MlyI	GAGTC	2 cut(s)	262, 563
MnlI	CCTC	4 cut(s)	26, 255, 334, 387
Mph1103I	ATGCAT	1 cut(s)	6
MroXI	GAANNNNTTC	1 cut(s)	294
MslI	CAYNNNNRTG	1 cut(s)	98
MspI	CCGG	3 cut(s)	209, 272, 305
MspR9I	CCNGG	2 cut(s)	209, 563
Mva1269I	GAATGC	1 cut(s)	445
MvaI	CCWGG	1 cut(s)	563
MvnI	CGCG	3 cut(s)	173, 226, 233
MwoI	GCNNNNNNNGC	5 cut(s)	147, 172, 177, 230, 451
NciI	CCSGG	1 cut(s)	209
NdeII	GATC	1 cut(s)	321
NlaIII	CATG	3 cut(s)	103, 392, 432
NmuCI	GTSAC	1 cut(s)	417
NsiI	ATGCAT	1 cut(s)	6
PaeR7I	CTCGAG	1 cut(s)	455
PauI	GCGCGC	1 cut(s)	171
PctI	GAATGC	1 cut(s)	445
PdmI	GAANNNNTTC	1 cut(s)	294
PfeI	GAWTC	5 cut(s)	12, 65, 268, 295, 384
PkrI	GCNGC	8 cut(s)	36, 118, 182, 185, 220, 223, 235, 366
PleI	GAGTC	2 cut(s)	261, 562
PpsI	GAGTC	2 cut(s)	261, 562
Psp6I	CCWGG	1 cut(s)	561
PspGI	CCWGG	1 cut(s)	561
PspXI	VCTCGAGB	1 cut(s)	455
PstI	CTGCAG	2 cut(s)	185, 223
PteI	GCGCGC	1 cut(s)	171
RsaI	GTAC	3 cut(s)	58, 502, 511
RsaNI	GTAC	3 cut(s)	57, 501, 510
RseI	CAYNNNNRTG	1 cut(s)	98
SatI	GCNGC	8 cut(s)	35, 117, 181, 184, 219, 222, 234, 365
Sau3AI	GATC	1 cut(s)	321
ScaI	AGTACT	2 cut(s)	502, 511
SchI	GAGTC	2 cut(s)	262, 563
ScrFI	CCNGG	2 cut(s)	209, 563
SduI	GDGCHC	2 cut(s)	133, 246
SetI	ASST	5 cut(s)	36, 194, 357, 398, 602
SfaNI	GCATC	1 cut(s)	13
SfcI	CTRYAG	2 cut(s)	181, 219
Sfr274I	CTCGAG	1 cut(s)	455
SlaI	CTCGAG	1 cut(s)	455
SmiMI	CAYNNNNRTG	1 cut(s)	98
SmlI	CTYRAG	3 cut(s)	200, 245, 455
SmoI	CTYRAG	3 cut(s)	200, 245, 455
SpeI	ACTAGT	2 cut(s)	491, 512
Sse9I	AATT	3 cut(s)	85, 436, 532
SsiI	CCGC	3 cut(s)	116, 233, 278
SspMI	CTAG	3 cut(s)	483, 492, 513
StyD4I	CCNGG	2 cut(s)	207, 561
TaaI	ACNGT	2 cut(s)	56, 287
TaqI	TCGA	3 cut(s)	90, 456, 473
TaqII	GACCGA	1 cut(s)	326
TasI	AATT	3 cut(s)	85, 436, 532
TatI	WGTACW	2 cut(s)	500, 509
TauI	GCSGC	2 cut(s)	119, 236
TfiI	GAWTC	5 cut(s)	12, 65, 268, 295, 384
TscAI	CASTG	3 cut(s)	244, 456, 556
TseFI	GTSAC	1 cut(s)	417
TseI	GCWGC	6 cut(s)	34, 180, 183, 218, 221, 364
Tsp45I	GTSAC	1 cut(s)	417
TspDTI	ATGAA	3 cut(s)	98, 287, 525
TspGWI	ACGGA	1 cut(s)	396
TspRI	CASTG	3 cut(s)	244, 456, 556
XapI	RAATTY	2 cut(s)	85, 532
XhoI	CTCGAG	1 cut(s)	455
XmnI	GAANNNNTTC	1 cut(s)	294
XspI	CTAG	3 cut(s)	483, 492, 513
ZrmI	AGTACT	2 cut(s)	502, 511
Zsp2I	ATGCAT	1 cut(s)	6

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