Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003546

Physical Location & Seq

Genomic Coordinates Forward (+)

27715187 .. 27715720

Gene Structure 534 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG242400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGTTGAACATATTCCTTGCCTGGATTCTCGAAGCTATCCCGGAACTCGATCCTGAATCAGGAGGTATTATTTACGGAACCCTGATTAATGTTGGTTCGAGCAATCAATTTCGTCAAGCTGTACTGCGATTTCTGCAGAGATTAGGAGTCATAAAGGATGTCATACAGGAAATAGATGCAAAACGAGGGCCACGGCTTAGGGACATGAAGAAATTGCCACCACTAGTGCATTATGGAAGCAATGGAATTGAATTGTCGAGTTCAAGGAGTACTACTGACTGTGCAATTTGTTTGGAGGATTTTTCAGAAGGCGAGTCATGTCAAGTTTTTCCAATGTGCAAGCATGTTTTCCATTCGAATTGCATTGACCATTGGTTGGTGAATAGGTCTACTTGCCCAATTTGTCGAAACTGTATCATAGATGAATAA

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

142

Amino Acids

16.01

Weight (kDa)

5.79

Isoelectric Point (pI)

51.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	93 - 136	1.5e-14	Ring finger domain
zf-RING_11	PF17123	93 - 122	9.6e-10	RING-like zinc finger
zf-C3HC4_2	PF13923	94 - 135	1.4e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	94 - 135	8e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	94 - 133	1.3e-06	RING-type zinc-finger
zf-rbx1	PF12678	97 - 136	4.7e-08	RING-H2 zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003546)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17450 AT4G35480
fragaria_vesca	FvH4_3g20200 FvH4_5g05151
malus_domestica	MD03G1226600.v1.1 MD03G1226700.v1.1 MD06G1176900.v1.1 MD11G1244200.v1.1 MD11G1244300.v1.1 MD11G1244400.v1.1 MD14G1183100.v1.1
prunus_persica	Prupe.4G182700_v2.0.a1 Prupe.4G182800_v2.0.a1 Prupe.5G175600_v2.0.a1 Prupe.6G077100_v2.0.a1
pyrus_communis	pycom06g15700
rosa_chinensis	RchiOBHm_Chr5g0034021 RchiOBHm_Chr7g0193811
rosa_laevigata	RLG00000004243
rosa_multiflora	Rmu_sc0001436.1_g000029
rosa_roxburghii	Rroxscaffold_1G00046210 Rroxscaffold_3G00261810
rosa_rugosa	Rorug07G0012200
rosa_samantha	Rh5AG235200 Rh5BG235900 Rh5CG265700 Rh5CG265800 Rh5DG242400 Rh7AG138800 Rh7BG139100 Rh7CG142800 Rh7DG140400
rosa_wichuraiana	Rw5G021230 Rw5G021450 Rw7G011830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	376
AccI	GTMKAC	1 cut(s)	389
AclWI	GGATC	1 cut(s)	44
AfaI	GTAC	2 cut(s)	123, 271
AfiI	CCNNNNNNNGG	2 cut(s)	59, 376
AgsI	TTSAA	3 cut(s)	7, 251, 264
AhlI	ACTAGT	1 cut(s)	223
AjnI	CCWGG	1 cut(s)	20
AluBI	AGCT	2 cut(s)	35, 119
AluI	AGCT	2 cut(s)	35, 119
AlwI	GGATC	1 cut(s)	44
AoxI	GGCC	1 cut(s)	188
AseI	ATTAAT	1 cut(s)	87
Asp700I	GAANNNNTTC	1 cut(s)	11
AspS9I	GGNCC	1 cut(s)	188
AsuC2I	CCSGG	1 cut(s)	41
AsuHPI	GGTGA	1 cut(s)	391
AsuII	TTCGAA	1 cut(s)	356
BceAI	ACGGC	1 cut(s)	209
BciT130I	CCWGG	1 cut(s)	22
BcnI	CCSGG	1 cut(s)	41
BcuI	ACTAGT	1 cut(s)	223
BfaI	CTAG	1 cut(s)	224
BfmI	CTRYAG	1 cut(s)	134
BmcAI	AGTACT	1 cut(s)	271
Bme1390I	CCNGG	2 cut(s)	22, 41
BmgT120I	GGNCC	1 cut(s)	188
BmiI	GGNNCC	1 cut(s)	79
BmrFI	CCNGG	2 cut(s)	22, 41
BmsI	GCATC	1 cut(s)	166
Bpu10I	CCTNAGC	1 cut(s)	197
Bpu14I	TTCGAA	1 cut(s)	356
BpuMI	CCSGG	1 cut(s)	41
BsaJI	CCNNGG	1 cut(s)	191
Bsc4I	CCNNNNNNNGG	2 cut(s)	59, 376
Bse3DI	GCAATG	1 cut(s)	247
BseBI	CCWGG	1 cut(s)	22
BseDI	CCNNGG	1 cut(s)	191
BseGI	GGATG	1 cut(s)	163
BseLI	CCNNNNNNNGG	2 cut(s)	59, 376
BseMI	GCAATG	1 cut(s)	247
BshFI	GGCC	1 cut(s)	190
BsiSI	CCGG	1 cut(s)	41
BslFI	GGGAC	1 cut(s)	215
BslI	CCNNNNNNNGG	2 cut(s)	59, 376
BsmFI	GGGAC	1 cut(s)	215
BsnI	GGCC	1 cut(s)	190
Bsp119I	TTCGAA	1 cut(s)	356
Bsp143I	GATC	1 cut(s)	49
BspANI	GGCC	1 cut(s)	190
BspLI	GGNNCC	1 cut(s)	79
BspMAI	CTGCAG	1 cut(s)	138
BspPI	GGATC	1 cut(s)	44
BspT104I	TTCGAA	1 cut(s)	356
BsrDI	GCAATG	1 cut(s)	247
BssECI	CCNNGG	1 cut(s)	191
BssMI	GATC	1 cut(s)	49
Bst2UI	CCWGG	1 cut(s)	22
Bst4CI	ACNGT	2 cut(s)	281, 413
BstBI	TTCGAA	1 cut(s)	356
BstC8I	GCNNGC	1 cut(s)	341
BstDEI	CTNAG	1 cut(s)	197
BstDSI	CCRYGG	1 cut(s)	191
BstENI	CCTNNNNNAGG	1 cut(s)	57
BstF5I	GGATG	1 cut(s)	163
BstKTI	GATC	1 cut(s)	52
BstMBI	GATC	1 cut(s)	49
BstMWI	GCNNNNNNNGC	1 cut(s)	133
BstNI	CCWGG	1 cut(s)	22
BstNSI	RCATGY	1 cut(s)	347
BstSCI	CCNGG	2 cut(s)	20, 39
BstSFI	CTRYAG	1 cut(s)	134
BsuRI	GGCC	1 cut(s)	190
BtgI	CCRYGG	1 cut(s)	191
BtsCI	GGATG	1 cut(s)	163
Cac8I	GCNNGC	1 cut(s)	341
Cfr13I	GGNCC	1 cut(s)	188
Csp6I	GTAC	2 cut(s)	122, 270
CviAII	CATG	3 cut(s)	205, 318, 344
CviJI	RGCY	4 cut(s)	35, 119, 190, 196
CviKI_1	RGCY	4 cut(s)	35, 119, 190, 196
CviQI	GTAC	2 cut(s)	122, 270
DdeI	CTNAG	1 cut(s)	197
DpnI	GATC	1 cut(s)	51
DpnII	GATC	1 cut(s)	49
EcoNI	CCTNNNNNAGG	1 cut(s)	57
EcoRII	CCWGG	1 cut(s)	20
FaeI	CATG	3 cut(s)	208, 321, 347
FaiI	YATR	8 cut(s)	11, 152, 164, 206, 234, 319, 345, 419
FaqI	GGGAC	1 cut(s)	215
FatI	CATG	3 cut(s)	204, 317, 343
FblI	GTMKAC	1 cut(s)	389
FokI	GGATG	1 cut(s)	170
FspBI	CTAG	1 cut(s)	224
HaeIII	GGCC	1 cut(s)	190
HapII	CCGG	1 cut(s)	41
Hin1II	CATG	3 cut(s)	208, 321, 347
HinfI	GANTC	4 cut(s)	25, 56, 147, 314
HpaII	CCGG	1 cut(s)	41
HphI	GGTGA	1 cut(s)	391
Hpy166II	GTNNAC	1 cut(s)	390
Hpy188I	TCNGA	1 cut(s)	307
Hpy188III	TCNNGA	3 cut(s)	29, 53, 60
Hpy8I	GTNNAC	1 cut(s)	390
HpyAV	CCTTC	1 cut(s)	302
HpyCH4III	ACNGT	2 cut(s)	281, 413
HpyCH4V	TGCA	6 cut(s)	136, 179, 229, 284, 339, 363
HpyF10VI	GCNNNNNNNGC	1 cut(s)	133
HpyF3I	CTNAG	1 cut(s)	197
Hsp92II	CATG	3 cut(s)	208, 321, 347
Kzo9I	GATC	1 cut(s)	49
LpnPI	CCDG	7 cut(s)	7, 34, 45, 54, 66, 95, 152
LweI	GCATC	1 cut(s)	166
MaeI	CTAG	1 cut(s)	224
MalI	GATC	1 cut(s)	51
MboI	GATC	1 cut(s)	49
MboII	GAAGA	1 cut(s)	220
MluCI	AATT	7 cut(s)	107, 212, 246, 251, 285, 358, 399
MlyI	GAGTC	2 cut(s)	156, 323
MnlI	CCTC	3 cut(s)	56, 179, 289
MroXI	GAANNNNTTC	1 cut(s)	11
MseI	TTAA	1 cut(s)	87
MspI	CCGG	1 cut(s)	41
MspR9I	CCNGG	2 cut(s)	22, 41
MvaI	CCWGG	1 cut(s)	22
MwoI	GCNNNNNNNGC	1 cut(s)	133
NciI	CCSGG	1 cut(s)	41
NdeII	GATC	1 cut(s)	49
NlaIII	CATG	3 cut(s)	208, 321, 347
NlaIV	GGNNCC	1 cut(s)	79
NspI	RCATGY	1 cut(s)	347
NspV	TTCGAA	1 cut(s)	356
PdmI	GAANNNNTTC	1 cut(s)	11
PfeI	GAWTC	2 cut(s)	25, 56
PflMI	CCANNNNNTGG	1 cut(s)	376
PfoI	TCCNGGA	1 cut(s)	39
PleI	GAGTC	2 cut(s)	155, 322
PpsI	GAGTC	2 cut(s)	155, 322
PshBI	ATTAAT	1 cut(s)	87
Psp6I	CCWGG	1 cut(s)	20
PspGI	CCWGG	1 cut(s)	20
PspN4I	GGNNCC	1 cut(s)	79
PspPI	GGNCC	1 cut(s)	188
PstI	CTGCAG	1 cut(s)	138
RsaI	GTAC	2 cut(s)	123, 271
RsaNI	GTAC	2 cut(s)	122, 270
SaqAI	TTAA	1 cut(s)	87
Sau3AI	GATC	1 cut(s)	49
Sau96I	GGNCC	1 cut(s)	188
ScaI	AGTACT	1 cut(s)	271
SchI	GAGTC	2 cut(s)	156, 323
ScrFI	CCNGG	2 cut(s)	22, 41
SetI	ASST	4 cut(s)	37, 67, 121, 389
SfaNI	GCATC	1 cut(s)	166
SfcI	CTRYAG	1 cut(s)	134
SfuI	TTCGAA	1 cut(s)	356
SpeI	ACTAGT	1 cut(s)	223
Sse9I	AATT	7 cut(s)	107, 212, 246, 251, 285, 358, 399
SspMI	CTAG	1 cut(s)	224
StyD4I	CCNGG	2 cut(s)	20, 39
TaaI	ACNGT	2 cut(s)	281, 413
TaqI	TCGA	6 cut(s)	30, 48, 98, 257, 356, 406
TasI	AATT	7 cut(s)	107, 212, 246, 251, 285, 358, 399
TatI	WGTACW	2 cut(s)	121, 269
TfiI	GAWTC	2 cut(s)	25, 56
Tru1I	TTAA	1 cut(s)	87
Tru9I	TTAA	1 cut(s)	87
TspDTI	ATGAA	1 cut(s)	221
TspGWI	ACGGA	1 cut(s)	90
Van91I	CCANNNNNTGG	1 cut(s)	376
VspI	ATTAAT	1 cut(s)	87
XagI	CCTNNNNNAGG	1 cut(s)	57
XceI	RCATGY	1 cut(s)	347
XmiI	GTMKAC	1 cut(s)	389
XmnI	GAANNNNTTC	1 cut(s)	11
XspI	CTAG	1 cut(s)	224
ZrmI	AGTACT	1 cut(s)	271

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