Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0008168

Physical Location & Seq

Genomic Coordinates Reverse (-)

345106 .. 346012

Gene Structure 907 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG005500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 318 bp

ATGACACTTTTAGAGGTGGAAGAATCAAATTGGAAGAGCAGAAAGATGGAAATGCAGCAATACTGTGCACGTGAATGGAAGTCCATCTTAGGTGCAACAGCCGATTCTGAAAATTCTAAAGGCGGCTTTGACTGCAACATCTGCTCAGATTTTGCTCACGAGCCAGTGGTCACCCTCTGTGGCCATCTGTACTGCTGGCCTTGCATCTACAAATGGCTTCACGTCCAGAGCGCCTCCCTTGCGTCTGATGAGTGCCCTCAGTGCCCTGTTTGCAAGAAACAAGATGTATTTGAAGTGGAATGTGGCAATGTGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009611 GO:0009628 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 GO:0010498 GO:0012505 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0036211 GO:0042175 GO:0042221 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051603 GO:0070647 GO:0071704 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4

Protein Analysis

105

Amino Acids

11.94

Weight (kDa)

4.91

Isoelectric Point (pI)

53.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	44 - 91	9.5e-07	Ring finger domain
zf-RING_5	PF14634	44 - 93	3.5e-06	zinc-RING finger domain
zf-C3HC4	PF00097	45 - 91	1.3e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	45 - 74	4.6e-07	RING-type zinc-finger
zf-C3HC4_4	PF15227	45 - 88	8.6e-07	zinc finger of C3HC4-type, RING
zf-C3HC4_2	PF13923	45 - 88	2.9e-06	Zinc finger, C3HC4 type (RING finger)
RING_XB3-XBAT31	PF24921	45 - 94	1.9e-06	E3 ubiquitin-protein ligase XB3/XBAT31 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: OG0008168)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0362361 RchiOBHm_Chr2g0145341
rosa_multiflora	Rmu_sc0000079.1_g000040 Rmu_sc0000658.1_g000009 Rmu_sc0002824.1_g000018 Rmu_sc0004305.1_g000012 Rmu_sc0004593.1_g000007 Rmu_sc0004637.1_g000004 Rmu_sc0016426.1_g000005
rosa_rugosa	Rorug05G0063300
rosa_samantha	Rh1AG402100 Rh2AG481800 Rh2AG495200 Rh2CG468100 Rh2CG481300 Rh2DG005500 Rh2DG005600 Rh4AG086600 Rh4CG094500 Rh5AG024100 Rh5AG024200 Rh5CG027000
rosa_wichuraiana	Rw2G032630 Rw4G022140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	123
AcoI	YGGCCR	1 cut(s)	181
AcsI	RAATTY	1 cut(s)	112
AcvI	CACGTG	1 cut(s)	71
AfaI	GTAC	1 cut(s)	191
AgsI	TTSAA	1 cut(s)	293
AjiI	CACGTC	1 cut(s)	223
Alw21I	GWGCWC	1 cut(s)	70
Alw44I	GTGCAC	1 cut(s)	66
AoxI	GGCC	2 cut(s)	181, 197
ApaLI	GTGCAC	1 cut(s)	66
ApeKI	GCWGC	1 cut(s)	55
ApoI	RAATTY	1 cut(s)	112
AspLEI	GCGC	1 cut(s)	233
AsuHPI	GGTGA	1 cut(s)	163
BaeGI	GKGCMC	3 cut(s)	70, 257, 266
BalI	TGGCCA	1 cut(s)	183
BauI	CACGAG	1 cut(s)	158
BbrPI	CACGTG	1 cut(s)	71
Bbv12I	GWGCWC	1 cut(s)	70
BbvI	GCAGC	1 cut(s)	67
BccI	CCATC	3 cut(s)	40, 92, 192
BfoI	RGCGCY	1 cut(s)	234
BisI	GCNGC	2 cut(s)	56, 124
BlsI	GCNGC	2 cut(s)	57, 125
BmgBI	CACGTC	1 cut(s)	223
BmsI	GCATC	1 cut(s)	213
BsaAI	YACGTR	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	164
Bse3DI	GCAATG	1 cut(s)	313
BseMI	GCAATG	1 cut(s)	313
BseMII	CTCAG	2 cut(s)	159, 272
BseNI	ACTGG	1 cut(s)	164
BseSI	GKGCMC	3 cut(s)	70, 257, 266
BseXI	GCAGC	1 cut(s)	67
BshFI	GGCC	2 cut(s)	183, 199
BsiHKAI	GWGCWC	1 cut(s)	70
BsnI	GGCC	2 cut(s)	183, 199
Bsp1286I	GDGCHC	3 cut(s)	70, 257, 266
BspACI	CCGC	1 cut(s)	123
BspANI	GGCC	2 cut(s)	183, 199
BspCNI	CTCAG	2 cut(s)	158, 271
BspQI	GCTCTTC	1 cut(s)	29
BsrDI	GCAATG	1 cut(s)	313
BsrI	ACTGG	1 cut(s)	164
BssSI	CACGAG	1 cut(s)	158
Bst2BI	CACGAG	1 cut(s)	158
Bst4CI	ACNGT	1 cut(s)	65
Bst6I	CTCTTC	1 cut(s)	29
BstAPI	GCANNNNNTGC	1 cut(s)	141
BstBAI	YACGTR	1 cut(s)	71
BstC8I	GCNNGC	1 cut(s)	197
BstDEI	CTNAG	3 cut(s)	88, 145, 258
BstEII	GGTNACC	1 cut(s)	169
BstH2I	RGCGCY	1 cut(s)	234
BstHHI	GCGC	1 cut(s)	233
BstMWI	GCNNNNNNNGC	6 cut(s)	132, 141, 201, 239, 261, 270
BstPI	GGTNACC	1 cut(s)	169
BstSLI	GKGCMC	3 cut(s)	70, 257, 266
BstV1I	GCAGC	1 cut(s)	67
BsuRI	GGCC	2 cut(s)	183, 199
BtrI	CACGTC	1 cut(s)	223
BtsIMutI	CAGTG	2 cut(s)	171, 266
Cac8I	GCNNGC	1 cut(s)	197
CfoI	GCGC	1 cut(s)	233
CseI	GACGC	1 cut(s)	231
Csp6I	GTAC	1 cut(s)	190
CviJI	RGCY	6 cut(s)	101, 126, 163, 183, 199, 217
CviKI_1	RGCY	6 cut(s)	101, 126, 163, 183, 199, 217
CviQI	GTAC	1 cut(s)	190
DdeI	CTNAG	3 cut(s)	88, 145, 258
EaeI	YGGCCR	1 cut(s)	181
Eam1104I	CTCTTC	1 cut(s)	29
EarI	CTCTTC	1 cut(s)	29
Eco72I	CACGTG	1 cut(s)	71
Eco91I	GGTNACC	1 cut(s)	169
EcoO65I	GGTNACC	1 cut(s)	169
FalI	AAGNNNNNCTT	2 cut(s)	71, 103
Fnu4HI	GCNGC	2 cut(s)	56, 124
Fsp4HI	GCNGC	2 cut(s)	56, 124
GlaI	GCGC	1 cut(s)	232
GluI	GCNGC	2 cut(s)	56, 124
HaeII	RGCGCY	1 cut(s)	234
HaeIII	GGCC	2 cut(s)	183, 199
HgaI	GACGC	1 cut(s)	231
HhaI	GCGC	1 cut(s)	233
Hin6I	GCGC	1 cut(s)	231
HinP1I	GCGC	1 cut(s)	231
HinfI	GANTC	2 cut(s)	23, 104
HphI	GGTGA	1 cut(s)	163
Hpy166II	GTNNAC	1 cut(s)	68
Hpy188I	TCNGA	3 cut(s)	109, 148, 247
Hpy188III	TCNNGA	2 cut(s)	158, 226
Hpy8I	GTNNAC	1 cut(s)	68
HpyCH4III	ACNGT	1 cut(s)	65
HpyCH4IV	ACGT	2 cut(s)	70, 222
HpyCH4V	TGCA	7 cut(s)	55, 68, 95, 135, 204, 273, 313
HpyF10VI	GCNNNNNNNGC	6 cut(s)	132, 141, 201, 239, 261, 270
HpyF3I	CTNAG	3 cut(s)	88, 145, 258
HpySE526I	ACGT	2 cut(s)	70, 222
HspAI	GCGC	1 cut(s)	231
LguI	GCTCTTC	1 cut(s)	29
LpnPI	CCDG	4 cut(s)	177, 181, 239, 279
Lsp1109I	GCAGC	1 cut(s)	67
LweI	GCATC	1 cut(s)	213
MaeII	ACGT	2 cut(s)	70, 222
MaeIII	GTNAC	1 cut(s)	169
MboII	GAAGA	2 cut(s)	32, 46
MhlI	GDGCHC	3 cut(s)	70, 257, 266
MlsI	TGGCCA	1 cut(s)	183
MluCI	AATT	2 cut(s)	28, 112
MluNI	TGGCCA	1 cut(s)	183
MnlI	CCTC	4 cut(s)	7, 185, 244, 267
Mox20I	TGGCCA	1 cut(s)	183
MscI	TGGCCA	1 cut(s)	183
MslI	CAYNNNNRTG	1 cut(s)	73
Msp20I	TGGCCA	1 cut(s)	183
MwoI	GCNNNNNNNGC	6 cut(s)	132, 141, 201, 239, 261, 270
NmuCI	GTSAC	1 cut(s)	169
PciSI	GCTCTTC	1 cut(s)	29
PfeI	GAWTC	2 cut(s)	23, 104
PkrI	GCNGC	2 cut(s)	57, 125
PmaCI	CACGTG	1 cut(s)	71
PmlI	CACGTG	1 cut(s)	71
Ppu21I	YACGTR	1 cut(s)	71
PspCI	CACGTG	1 cut(s)	71
PspEI	GGTNACC	1 cut(s)	169
RsaI	GTAC	1 cut(s)	191
RsaNI	GTAC	1 cut(s)	190
RseI	CAYNNNNRTG	1 cut(s)	73
SapI	GCTCTTC	1 cut(s)	29
SatI	GCNGC	2 cut(s)	56, 124
SduI	GDGCHC	3 cut(s)	70, 257, 266
SetI	ASST	4 cut(s)	18, 73, 94, 225
SfaNI	GCATC	1 cut(s)	213
SmiMI	CAYNNNNRTG	1 cut(s)	73
Sse9I	AATT	2 cut(s)	28, 112
SsiI	CCGC	1 cut(s)	123
TaaI	ACNGT	1 cut(s)	65
TaiI	ACGT	2 cut(s)	73, 225
TasI	AATT	2 cut(s)	28, 112
TatI	WGTACW	1 cut(s)	189
TauI	GCSGC	1 cut(s)	126
TfiI	GAWTC	2 cut(s)	23, 104
TscAI	CASTG	2 cut(s)	171, 266
TseFI	GTSAC	1 cut(s)	169
TseI	GCWGC	1 cut(s)	55
Tsp45I	GTSAC	1 cut(s)	169
TspRI	CASTG	2 cut(s)	171, 266
VneI	GTGCAC	1 cut(s)	66
XapI	RAATTY	1 cut(s)	112

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