Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004326

Physical Location & Seq

Genomic Coordinates Reverse (-)

92902124 .. 92904661

Gene Structure 2538 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG541200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGGAGGAAGCAATGGCAGCTAGGTACTGGTGCTACAGGTGTTCTGAAATGGTGAACCCCGTCATGGGAGTTGAAATGAAATGCCCATTTTGCCAGAGCGGATTTATTGAGGAAATGGATGGCACCACTAGGGACAATCATGAACCCGACTCTGAATTTGGACCCGATCGACCTCTCTCCCTCTGGGCTCCAATCTTGATGGGGATGATGAACAACAATCCCCGTAGACGACGGAGATTGAGACGACAAGAGTTCGATGACGATGATGATGAGGATAATGAGAATGATGATGCCCATGGGGGAGAGACTGAACTGGACAGAGAACTTGATTCAATCATCCGAAGGAGGAGGAGAAGCTCATCTTCCATTCTTCAACTGCTTCGAGGCATTCGAGCTGCTGGCTTGGCATCTGAATCAGAGAATTCTGAGAGTGATAGGGACAGGGACAGGGACAGGGACAGGGACAGGGACAGGGATAGGGATAGGGACAGAGAAAGGGAAAGGGAACGCCTAATTCTTATCAACCCTTTCAATCAAACCATCATTCTTCATGGTTCTTACGATTCAAGTCAGGGTCAAAACAACAATCACACCGCTATTGGTTCATTAGGTGATTATTTTATTGGCCCTGGTCTGGACTTATTGCTGCAACATTTGGCAGAGAATGATCCTAATAGATATGGAACTCCTCCGGCACAAAAGGAGGCAGTGGAAGCTCTGCCCACTGTGACAATTAAGGAGAATTTGCAATGTTCTGTGTGCTTGGATGATTTTAAGATTGGTGTTGAAGCAAAAGAAATGCCATGTAAGCATAAATTTCATGGTGACTGTATTCTGCCATGGCTGGAGCTTCATAGTTCCTGCCCAGTTTGCAGGTTTCAGTTGCCTGCTGATGAAGCCAAACATGATTCCAATAATTCTAGAAACAGCAGTAACCAGAGGGATAGTGAGAACACTGGCGGTGCTGGGGAAGAGGGAGATGAGAATGGGGATGGTATTGCGATTGGGAGAAATGGAAGTGGCAGAAGGTTTCAATTTCCGTGGCCTTTCAATCTGTTTTCATCGACAGAATCTCAATCTAGTGGCAGTGGGGGTAATTCTTCCTCATCAGCAAATGCAACTGGAAGCGGGAGTGGGAGTGGTTCGTCTCAAACAGATGACAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009653 GO:0009791 GO:0009826 GO:0009888 GO:0009987 GO:0010026 GO:0010154 GO:0016043 GO:0016049 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022412 GO:0022414 GO:0030154 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0032989 GO:0036211 GO:0040007 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0048316 GO:0048468 GO:0048589 GO:0048608 GO:0048731 GO:0048856 GO:0048869 GO:0060560 GO:0061458 GO:0070647 GO:0071704 GO:0071840 GO:0090376 GO:0090378 GO:0090558 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2 zinc_ribbon_9

Protein Analysis

388

Amino Acids

43.46

Weight (kDa)

4.81

Isoelectric Point (pI)

58.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_19	PF14369	8 - 39	3.6e-11	zinc-ribbon
zf-RING_2	PF13639	250 - 292	9.7e-14	Ring finger domain
zf-C3HC4_2	PF13923	250 - 291	1.6e-10	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	250 - 278	3.4e-09	RING-like zinc finger
zf-C3HC4	PF00097	251 - 291	1.4e-07	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	265 - 292	1.4e-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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004326)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55530 AT1G55530 AT1G55530 AT3G13430 AT3G13430 AT3G13430 AT3G13430 AT4G26400 AT4G26400 AT5G56340
fragaria_vesca	FvH4_3g45930 FvH4_3g45930 FvH4_3g45930 FvH4_3g45930 FvH4_3g45930
malus_domestica	MD03G1001600.v1.1 MD11G1001300.v1.1
prunus_persica	Prupe.6G001500_v2.0.a1 Prupe.6G001500_v2.0.a1
pyrus_communis	pycom03g00160 pycom11g00150
rosa_chinensis	RchiOBHm_Chr5g0084041
rosa_laevigata	RLG00000037075
rosa_multiflora	Rmu_ssc0000372.1_g000084
rosa_roxburghii	Rroxscaffold_1G00000620
rosa_rugosa	Rorug05G0488500 Rorug05G0488500
rosa_samantha	Rh5AG541200 Rh5BG566500 Rh5CG588500 Rh5DG574900
rosa_wichuraiana	Rw5G050330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	864
AccB1I	GGYRCC	1 cut(s)	122
AccBSI	CCGCTC	1 cut(s)	99
AccI	GTMKAC	1 cut(s)	226
AciI	CCGC	4 cut(s)	99, 594, 960, 1128
AclWI	GGATC	1 cut(s)	662
AcsI	RAATTY	4 cut(s)	155, 421, 742, 815
AfaI	GTAC	1 cut(s)	26
AfiI	CCNNNNNNNGG	3 cut(s)	64, 65, 634
AgsI	TTSAA	8 cut(s)	74, 333, 374, 532, 567, 788, 1034, 1051
AjnI	CCWGG	1 cut(s)	628
AluBI	AGCT	5 cut(s)	20, 357, 395, 716, 850
AluI	AGCT	5 cut(s)	20, 357, 395, 716, 850
Alw26I	GTCTC	3 cut(s)	235, 299, 1152
AlwI	GGATC	1 cut(s)	662
AoxI	GGCC	2 cut(s)	625, 1043
ApeKI	GCWGC	3 cut(s)	17, 395, 646
ApoI	RAATTY	4 cut(s)	155, 421, 742, 815
ArsI	GACNNNNNNTTYG	2 cut(s)	140, 172
AspS9I	GGNCC	2 cut(s)	161, 626
AsuHPI	GGTGA	3 cut(s)	64, 623, 836
AvaII	GGWCC	1 cut(s)	161
BanI	GGYRCC	1 cut(s)	122
BanII	GRGCYC	1 cut(s)	190
BbvI	GCAGC	3 cut(s)	29, 382, 633
BccI	CCATC	4 cut(s)	113, 193, 548, 986
BciT130I	CCWGG	1 cut(s)	630
BcoDI	GTCTC	3 cut(s)	235, 299, 1152
BfaI	CTAG	4 cut(s)	21, 129, 921, 1080
BfmI	CTRYAG	1 cut(s)	34
BfuAI	ACCTGC	1 cut(s)	864
BisI	GCNGC	3 cut(s)	18, 396, 647
BlsI	GCNGC	3 cut(s)	19, 397, 648
Bme1390I	CCNGG	1 cut(s)	630
Bme18I	GGWCC	1 cut(s)	161
BmgT120I	GGNCC	2 cut(s)	161, 626
BmiI	GGNNCC	3 cut(s)	124, 163, 189
BmrFI	CCNGG	1 cut(s)	630
BmrI	ACTGGG	1 cut(s)	860
BmsI	GCATC	2 cut(s)	280, 416
BmuI	ACTGGG	1 cut(s)	860
BpmI	CTGGAG	1 cut(s)	866
BsaJI	CCNNGG	4 cut(s)	295, 628, 839, 1040
BsaXI	ACNNNNNCTCC	2 cut(s)	1123, 1153
Bsc4I	CCNNNNNNNGG	3 cut(s)	64, 65, 634
Bse1I	ACTGG	5 cut(s)	32, 318, 866, 961, 1126
Bse3DI	GCAATG	2 cut(s)	18, 755
BseBI	CCWGG	1 cut(s)	630
BseDI	CCNNGG	4 cut(s)	295, 628, 839, 1040
BseGI	GGATG	5 cut(s)	124, 210, 336, 772, 997
BseLI	CCNNNNNNNGG	3 cut(s)	64, 65, 634
BseMI	GCAATG	2 cut(s)	18, 755
BseMII	CTCAG	1 cut(s)	417
BseNI	ACTGG	5 cut(s)	32, 318, 866, 961, 1126
BseRI	GAGGAG	3 cut(s)	361, 364, 678
BseXI	GCAGC	3 cut(s)	29, 382, 633
BseYI	CCCAGC	1 cut(s)	965
Bsh1285I	CGRYCG	1 cut(s)	169
BshFI	GGCC	2 cut(s)	627, 1045
BshNI	GGYRCC	1 cut(s)	122
BsiEI	CGRYCG	1 cut(s)	169
BsiSI	CCGG	1 cut(s)	692
BslFI	GGGAC	8 cut(s)	146, 452, 458, 464, 470, 476, 482, 500
BslI	CCNNNNNNNGG	3 cut(s)	64, 65, 634
BsmAI	GTCTC	3 cut(s)	235, 299, 1152
BsmBI	CGTCTC	2 cut(s)	235, 1152
BsmFI	GGGAC	8 cut(s)	146, 452, 458, 464, 470, 476, 482, 500
BsmI	GAATGC	1 cut(s)	387
BsnI	GGCC	2 cut(s)	627, 1045
Bsp1286I	GDGCHC	1 cut(s)	190
Bsp143I	GATC	2 cut(s)	166, 667
Bsp19I	CCATGG	2 cut(s)	295, 839
BspACI	CCGC	4 cut(s)	99, 594, 960, 1128
BspANI	GGCC	2 cut(s)	627, 1045
BspCNI	CTCAG	1 cut(s)	418
BspHI	TCATGA	1 cut(s)	139
BspLI	GGNNCC	3 cut(s)	124, 163, 189
BspMI	ACCTGC	1 cut(s)	864
BspPI	GGATC	1 cut(s)	662
BspT107I	GGYRCC	1 cut(s)	122
BsrBI	CCGCTC	1 cut(s)	99
BsrDI	GCAATG	2 cut(s)	18, 755
BsrI	ACTGG	5 cut(s)	32, 318, 866, 961, 1126
BssECI	CCNNGG	4 cut(s)	295, 628, 839, 1040
BssMI	GATC	2 cut(s)	166, 667
BssT1I	CCWWGG	2 cut(s)	295, 839
Bst2UI	CCWGG	1 cut(s)	630
Bst4CI	ACNGT	2 cut(s)	727, 830
Bst6I	CTCTTC	1 cut(s)	966
BstC8I	GCNNGC	2 cut(s)	400, 888
BstDEI	CTNAG	1 cut(s)	426
BstDSI	CCRYGG	3 cut(s)	295, 839, 1040
BstF5I	GGATG	5 cut(s)	124, 210, 336, 772, 997
BstKTI	GATC	2 cut(s)	169, 670
BstMAI	GTCTC	3 cut(s)	235, 299, 1152
BstMBI	GATC	2 cut(s)	166, 667
BstMCI	CGRYCG	1 cut(s)	169
BstMWI	GCNNNNNNNGC	7 cut(s)	17, 90, 404, 713, 808, 870, 896
BstNI	CCWGG	1 cut(s)	630
BstSCI	CCNGG	1 cut(s)	628
BstSFI	CTRYAG	1 cut(s)	34
BstV1I	GCAGC	3 cut(s)	29, 382, 633
BsuRI	GGCC	2 cut(s)	627, 1045
BtgI	CCRYGG	3 cut(s)	295, 839, 1040
BtsCI	GGATG	5 cut(s)	124, 210, 336, 772, 997
BtsI	GCAGTG	2 cut(s)	714, 1093
BtsIMutI	CAGTG	4 cut(s)	714, 723, 954, 1093
BveI	ACCTGC	1 cut(s)	864
Cac8I	GCNNGC	2 cut(s)	400, 888
CciI	TCATGA	1 cut(s)	139
Cfr13I	GGNCC	2 cut(s)	161, 626
Csp6I	GTAC	1 cut(s)	25
CspCI	CAANNNNNGTGG	2 cut(s)	1022, 1057
CviAII	CATG	8 cut(s)	64, 140, 296, 551, 804, 821, 840, 905
CviQI	GTAC	1 cut(s)	25
DdeI	CTNAG	1 cut(s)	426
DpnI	GATC	2 cut(s)	168, 669
DpnII	GATC	2 cut(s)	166, 667
Eam1104I	CTCTTC	1 cut(s)	966
EarI	CTCTTC	1 cut(s)	966
Eco130I	CCWWGG	2 cut(s)	295, 839
Eco24I	GRGCYC	1 cut(s)	190
Eco47I	GGWCC	1 cut(s)	161
EcoRI	GAATTC	1 cut(s)	421
EcoRII	CCWGG	1 cut(s)	628
EcoT14I	CCWWGG	2 cut(s)	295, 839
EcoT38I	GRGCYC	1 cut(s)	190
ErhI	CCWWGG	2 cut(s)	295, 839
Esp3I	CGTCTC	2 cut(s)	235, 1152
FaeI	CATG	8 cut(s)	67, 143, 299, 554, 807, 824, 843, 908
FalI	AAGNNNNNCTT	2 cut(s)	346, 378
FaqI	GGGAC	8 cut(s)	146, 452, 458, 464, 470, 476, 482, 500
FatI	CATG	8 cut(s)	63, 139, 295, 550, 803, 820, 839, 904
FauI	CCCGC	1 cut(s)	1121
FblI	GTMKAC	1 cut(s)	226
Fnu4HI	GCNGC	3 cut(s)	18, 396, 647
FokI	GGATG	5 cut(s)	131, 217, 323, 779, 1004
FriOI	GRGCYC	1 cut(s)	190
Fsp4HI	GCNGC	3 cut(s)	18, 396, 647
FspBI	CTAG	4 cut(s)	21, 129, 921, 1080
GluI	GCNGC	3 cut(s)	18, 396, 647
GsaI	CCCAGC	1 cut(s)	969
GsuI	CTGGAG	1 cut(s)	866
HaeIII	GGCC	2 cut(s)	627, 1045
HapII	CCGG	1 cut(s)	692
Hin1II	CATG	8 cut(s)	67, 143, 299, 554, 807, 824, 843, 908
HinfI	GANTC	6 cut(s)	149, 329, 413, 563, 908, 1070
HpaII	CCGG	1 cut(s)	692
HphI	GGTGA	3 cut(s)	64, 623, 836
Hpy166II	GTNNAC	2 cut(s)	55, 227
Hpy188I	TCNGA	6 cut(s)	46, 154, 341, 412, 418, 427
Hpy188III	TCNNGA	4 cut(s)	140, 196, 635, 921
Hpy8I	GTNNAC	2 cut(s)	55, 227
Hpy99I	CGWCG	1 cut(s)	234
HpyAV	CCTTC	2 cut(s)	336, 1020
HpyCH4III	ACNGT	2 cut(s)	727, 830
HpyCH4V	TGCA	4 cut(s)	649, 748, 873, 1118
HpyF10VI	GCNNNNNNNGC	7 cut(s)	17, 90, 404, 713, 808, 870, 896
HpyF3I	CTNAG	1 cut(s)	426
Hsp92II	CATG	8 cut(s)	67, 143, 299, 554, 807, 824, 843, 908
Kzo9I	GATC	2 cut(s)	166, 667
LmnI	GCTCC	2 cut(s)	193, 847
Lsp1109I	GCAGC	3 cut(s)	29, 382, 633
LweI	GCATC	2 cut(s)	280, 416
MaeI	CTAG	4 cut(s)	21, 129, 921, 1080
MaeIII	GTNAC	3 cut(s)	727, 824, 932
MalI	GATC	2 cut(s)	168, 669
MbiI	CCGCTC	1 cut(s)	99
MboI	GATC	2 cut(s)	166, 667
MboII	GAAGA	5 cut(s)	354, 362, 539, 983, 1092
MfeI	CAATTG	1 cut(s)	1162
MhlI	GDGCHC	1 cut(s)	190
MlyI	GAGTC	1 cut(s)	143
MseI	TTAA	2 cut(s)	735, 774
MspI	CCGG	1 cut(s)	692
MspR9I	CCNGG	1 cut(s)	630
MunI	CAATTG	1 cut(s)	1162
Mva1269I	GAATGC	1 cut(s)	387
MvaI	CCWGG	1 cut(s)	630
MwoI	GCNNNNNNNGC	7 cut(s)	17, 90, 404, 713, 808, 870, 896
NcoI	CCATGG	2 cut(s)	295, 839
NdeII	GATC	2 cut(s)	166, 667
NlaIII	CATG	8 cut(s)	67, 143, 299, 554, 807, 824, 843, 908
NlaIV	GGNNCC	3 cut(s)	124, 163, 189
NmuCI	GTSAC	2 cut(s)	727, 824
PagI	TCATGA	1 cut(s)	139
PcsI	WCGNNNNNNNCGW	1 cut(s)	388
PctI	GAATGC	1 cut(s)	387
PfeI	GAWTC	5 cut(s)	329, 413, 563, 908, 1070
PkrI	GCNGC	3 cut(s)	19, 397, 648
Ple19I	CGATCG	1 cut(s)	169
PleI	GAGTC	1 cut(s)	143
PpsI	GAGTC	1 cut(s)	143
Psp6I	CCWGG	1 cut(s)	628
PspFI	CCCAGC	1 cut(s)	965
PspGI	CCWGG	1 cut(s)	628
PspN4I	GGNNCC	3 cut(s)	124, 163, 189
PspPI	GGNCC	2 cut(s)	161, 626
PvuI	CGATCG	1 cut(s)	169
RsaI	GTAC	1 cut(s)	26
RsaNI	GTAC	1 cut(s)	25
SaqAI	TTAA	2 cut(s)	735, 774
SatI	GCNGC	3 cut(s)	18, 396, 647
Sau3AI	GATC	2 cut(s)	166, 667
Sau96I	GGNCC	2 cut(s)	161, 626
SchI	GAGTC	1 cut(s)	143
ScrFI	CCNGG	1 cut(s)	630
SduI	GDGCHC	1 cut(s)	190
SfaNI	GCATC	2 cut(s)	280, 416
SfcI	CTRYAG	1 cut(s)	34
SinI	GGWCC	1 cut(s)	161
SsiI	CCGC	4 cut(s)	99, 594, 960, 1128
SspMI	CTAG	4 cut(s)	21, 129, 921, 1080
StyD4I	CCNGG	1 cut(s)	628
StyI	CCWWGG	2 cut(s)	295, 839
TaaI	ACNGT	2 cut(s)	727, 830
TaqI	TCGA	5 cut(s)	169, 255, 382, 391, 1064
TfiI	GAWTC	5 cut(s)	329, 413, 563, 908, 1070
Tru1I	TTAA	2 cut(s)	735, 774
Tru9I	TTAA	2 cut(s)	735, 774
TscAI	CASTG	4 cut(s)	714, 730, 961, 1093
TseFI	GTSAC	2 cut(s)	727, 824
TseI	GCWGC	3 cut(s)	17, 395, 646
Tsp45I	GTSAC	2 cut(s)	727, 824
TspDTI	ATGAA	9 cut(s)	92, 156, 224, 539, 594, 809, 842, 909, 1050
TspGWI	ACGGA	2 cut(s)	247, 1029
TspRI	CASTG	4 cut(s)	714, 730, 961, 1093
VpaK11BI	GGWCC	1 cut(s)	161
XapI	RAATTY	4 cut(s)	155, 421, 742, 815
XbaI	TCTAGA	1 cut(s)	920
XmiI	GTMKAC	1 cut(s)	226
XspI	CTAG	4 cut(s)	21, 129, 921, 1080

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