Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002004

Physical Location & Seq

Genomic Coordinates Forward (+)

66673349 .. 66674281

Gene Structure 933 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG356400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGGGTTCTTTTTGTTCCTGCTTTAATGCGGACGATCCTTTGGATAACACGCACAATGCTAACAATGCCAACAATGATAACCGAATCATCCCTAACTTGTACAATAAGGTTGGGTTCGGCAATGAGGAAACACATTCATCTACTCAAGTAGCACCGAATGCTGTTATTATGGAATCTGGGACTGGCATGGATGCTGCTACTAATACTACTATTCAATCCCTTCCTGGTCCTTTGCTTATCGAAAAGAAGATTGGAGGACACTGGTTTCTCTATCCTTCTACCATGGAAGAGGAAGAATGCCCTACATGTCTTGAAGAATACACACCTGAAAATCCAAAGATAACAGCAAAGTGTTCTCACCATTTCCACCTTGCTTGCATATATGAATGGTTGGAGAGAAACCAAAAATGTCCAGTTTGCAGCCAGGTGATGTCATTTAATGATCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000209 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 zf-rbx1

Protein Analysis

149

Amino Acids

16.6

Weight (kDa)

4.76

Isoelectric Point (pI)

46.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	97 - 140	8.9e-12	RING-H2 zinc finger domain
zf-RING_2	PF13639	99 - 140	1.7e-12	Ring finger domain
zf-C3HC4_2	PF13923	99 - 140	4.2e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	99 - 127	1.6e-07	RING-like zinc finger
zf-ANAPC11	PF12861	100 - 147	2.2e-08	Anaphase-promoting complex subunit 11 RING-H2 finger
zf-C3HC4	PF00097	100 - 140	6.5e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	100 - 138	4.9e-08	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0002004)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G69085
fragaria_vesca	FvH4_4g22510 FvH4_4g22510 FvH4_4g22510 FvH4_4g22510 FvH4_4g29590
malus_domestica	MD13G1059100.v1.1 MD13G1131900.v1.1 MD16G1142200.v1.1
prunus_persica	Prupe.1G213500_v2.0.a1 Prupe.1G213500_v2.0.a1 Prupe.1G290700_v2.0.a1
pyrus_communis	pycom13g05270 pycom13g11490 pycom16g11270
rosa_chinensis	RchiOBHm_Chr4g0428741 RchiOBHm_Chr4g0437831
rosa_laevigata	RLG00000006409 RLG00000007130
rosa_multiflora	Rmu_sc0004193.1_g000009 Rmu_sc0010032.1_g000003
rosa_roxburghii	Rroxscaffold_1G00025140 Rroxscaffold_2G00125470 Rroxscaffold_4G00303240 Rroxscaffold_4G00325060 Rroxscaffold_5G00370400 Rroxscaffold_5G00379000 Rroxscaffold_7G00190540
rosa_rugosa	Rorug04G0227900 Rorug04G0228000 Rorug04G0304000 Rorug04G0304100
rosa_samantha	Rh4AG285300 Rh4AG356400 Rh4BG291300 Rh4BG367300 Rh4CG307100 Rh4CG381300 Rh4DG288400 Rh4DG361600 Rh7AG038600 Rh7CG039800 Rh7DG038300
rosa_wichuraiana	Rw4G024740 Rw4G031430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	29
AclWI	GGATC	1 cut(s)	29
AfaI	GTAC	1 cut(s)	101
AflIII	ACRYGT	1 cut(s)	305
AgsI	TTSAA	2 cut(s)	215, 314
AjnI	CCWGG	2 cut(s)	223, 423
AjuI	GAANNNNNNNTTGG	2 cut(s)	234, 266
AlwI	GGATC	1 cut(s)	29
ApeKI	GCWGC	2 cut(s)	194, 420
AspS9I	GGNCC	1 cut(s)	227
AsuHPI	GGTGA	2 cut(s)	350, 439
AvaII	GGWCC	1 cut(s)	227
BbvI	GCAGC	2 cut(s)	181, 432
BciT130I	CCWGG	2 cut(s)	225, 425
BisI	GCNGC	2 cut(s)	195, 421
BlsI	GCNGC	2 cut(s)	196, 422
Bme1390I	CCNGG	2 cut(s)	225, 425
Bme18I	GGWCC	1 cut(s)	227
BmgT120I	GGNCC	1 cut(s)	227
BmrFI	CCNGG	2 cut(s)	225, 425
BmsI	GCATC	1 cut(s)	181
BpuEI	CTTGAG	1 cut(s)	129
BsaJI	CCNNGG	1 cut(s)	282
Bse1I	ACTGG	3 cut(s)	187, 266, 413
Bse3DI	GCAATG	1 cut(s)	127
BseBI	CCWGG	2 cut(s)	225, 425
BseDI	CCNNGG	1 cut(s)	282
BseGI	GGATG	2 cut(s)	87, 196
BseMI	GCAATG	1 cut(s)	127
BseNI	ACTGG	3 cut(s)	187, 266, 413
BseXI	GCAGC	2 cut(s)	181, 432
BslFI	GGGAC	1 cut(s)	193
BsmFI	GGGAC	1 cut(s)	193
BsmI	GAATGC	2 cut(s)	163, 302
Bsp1407I	TGTACA	1 cut(s)	99
Bsp143I	GATC	2 cut(s)	34, 442
Bsp19I	CCATGG	1 cut(s)	282
BspACI	CCGC	1 cut(s)	29
BspPI	GGATC	1 cut(s)	29
BsrDI	GCAATG	1 cut(s)	127
BsrGI	TGTACA	1 cut(s)	99
BsrI	ACTGG	3 cut(s)	187, 266, 413
BssECI	CCNNGG	1 cut(s)	282
BssMI	GATC	2 cut(s)	34, 442
BssT1I	CCWWGG	1 cut(s)	282
Bst2UI	CCWGG	2 cut(s)	225, 425
Bst6I	CTCTTC	1 cut(s)	282
BstAPI	GCANNNNNTGC	1 cut(s)	158
BstAUI	TGTACA	1 cut(s)	99
BstC8I	GCNNGC	1 cut(s)	376
BstDSI	CCRYGG	1 cut(s)	282
BstF5I	GGATG	2 cut(s)	87, 196
BstKTI	GATC	2 cut(s)	37, 445
BstMBI	GATC	2 cut(s)	34, 442
BstMWI	GCNNNNNNNGC	2 cut(s)	65, 158
BstNI	CCWGG	2 cut(s)	225, 425
BstNSI	RCATGY	1 cut(s)	309
BstSCI	CCNGG	2 cut(s)	223, 423
BstV1I	GCAGC	2 cut(s)	181, 432
BtgI	CCRYGG	1 cut(s)	282
BtsCI	GGATG	2 cut(s)	87, 196
BtsIMutI	CAGTG	1 cut(s)	259
Cac8I	GCNNGC	1 cut(s)	376
Cfr13I	GGNCC	1 cut(s)	227
Csp6I	GTAC	1 cut(s)	100
CspCI	CAANNNNNGTGG	2 cut(s)	356, 391
CviAII	CATG	3 cut(s)	187, 283, 306
CviJI	RGCY	1 cut(s)	423
CviKI_1	RGCY	1 cut(s)	423
CviQI	GTAC	1 cut(s)	100
DpnI	GATC	2 cut(s)	36, 444
DpnII	GATC	2 cut(s)	34, 442
Eam1104I	CTCTTC	1 cut(s)	282
EarI	CTCTTC	1 cut(s)	282
Eco130I	CCWWGG	1 cut(s)	282
Eco47I	GGWCC	1 cut(s)	227
EcoRII	CCWGG	2 cut(s)	223, 423
EcoT14I	CCWWGG	1 cut(s)	282
ErhI	CCWWGG	1 cut(s)	282
FaeI	CATG	3 cut(s)	190, 286, 309
FaiI	YATR	7 cut(s)	170, 188, 284, 307, 380, 382, 384
FaqI	GGGAC	1 cut(s)	193
FatI	CATG	3 cut(s)	186, 282, 305
Fnu4HI	GCNGC	2 cut(s)	195, 421
FokI	GGATG	2 cut(s)	74, 203
Fsp4HI	GCNGC	2 cut(s)	195, 421
GluI	GCNGC	2 cut(s)	195, 421
Hin1II	CATG	3 cut(s)	190, 286, 309
HinfI	GANTC	2 cut(s)	84, 173
HphI	GGTGA	2 cut(s)	350, 439
Hpy188I	TCNGA	1 cut(s)	449
Hpy188III	TCNNGA	1 cut(s)	311
HpyAV	CCTTC	2 cut(s)	230, 285
HpyCH4V	TGCA	2 cut(s)	378, 420
HpyF10VI	GCNNNNNNNGC	2 cut(s)	65, 158
Hsp92II	CATG	3 cut(s)	190, 286, 309
Kzo9I	GATC	2 cut(s)	34, 442
Lsp1109I	GCAGC	2 cut(s)	181, 432
LweI	GCATC	1 cut(s)	181
MalI	GATC	2 cut(s)	36, 444
MboI	GATC	2 cut(s)	34, 442
MboII	GAAGA	4 cut(s)	259, 299, 305, 326
MmeI	TCCRAC	1 cut(s)	372
MnlI	CCTC	3 cut(s)	118, 248, 283
MseI	TTAA	2 cut(s)	24, 438
MspR9I	CCNGG	2 cut(s)	225, 425
Mva1269I	GAATGC	2 cut(s)	163, 302
MvaI	CCWGG	2 cut(s)	225, 425
MwoI	GCNNNNNNNGC	2 cut(s)	65, 158
NcoI	CCATGG	1 cut(s)	282
NdeII	GATC	2 cut(s)	34, 442
NlaIII	CATG	3 cut(s)	190, 286, 309
NspI	RCATGY	1 cut(s)	309
PciI	ACATGT	1 cut(s)	305
PctI	GAATGC	2 cut(s)	163, 302
PfeI	GAWTC	2 cut(s)	84, 173
PkrI	GCNGC	2 cut(s)	196, 422
PscI	ACATGT	1 cut(s)	305
Psp6I	CCWGG	2 cut(s)	223, 423
PspGI	CCWGG	2 cut(s)	223, 423
PspPI	GGNCC	1 cut(s)	227
RsaI	GTAC	1 cut(s)	101
RsaNI	GTAC	1 cut(s)	100
SaqAI	TTAA	2 cut(s)	24, 438
SatI	GCNGC	2 cut(s)	195, 421
Sau3AI	GATC	2 cut(s)	34, 442
Sau96I	GGNCC	1 cut(s)	227
ScrFI	CCNGG	2 cut(s)	225, 425
SetI	ASST	4 cut(s)	111, 328, 372, 429
SfaNI	GCATC	1 cut(s)	181
SinI	GGWCC	1 cut(s)	227
SmlI	CTYRAG	1 cut(s)	144
SmoI	CTYRAG	1 cut(s)	144
SsiI	CCGC	1 cut(s)	29
StyD4I	CCNGG	2 cut(s)	223, 423
StyI	CCWWGG	1 cut(s)	282
TaqI	TCGA	1 cut(s)	240
TatI	WGTACW	1 cut(s)	99
TfiI	GAWTC	2 cut(s)	84, 173
Tru1I	TTAA	2 cut(s)	24, 438
Tru9I	TTAA	2 cut(s)	24, 438
TscAI	CASTG	1 cut(s)	266
TseI	GCWGC	2 cut(s)	194, 420
TspDTI	ATGAA	2 cut(s)	126, 399
TspRI	CASTG	1 cut(s)	266
VpaK11BI	GGWCC	1 cut(s)	227
XceI	RCATGY	1 cut(s)	309

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