Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0002655

Physical Location & Seq

Genomic Coordinates Reverse (-)

2837636 .. 2839806

Gene Structure 2171 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010593

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGTATCGACCTACGTGGGCGCATTCGACTCCGGTTGGCCCTCAGCGGTGGCAAGAGACTTGGGCTCGCCTACTTACTCCTTTCACCCTTTGGATATGTGTTTCGGTGAGCATTCGATATGGTTATTATGGAGACAACCGTATGGAGCTTGGCCCAAGCTCCTCGCGCTTGATGAGGGCTAGTTCTGTTTTTGTACAACAAGTTGTAGTGAGAGATGTTGATAAGAAAGGGGTTTCTCTCTATGCTTTTTCTGAAGAGCCTAAGTTGAGCCACCAAGCTAATTGGAGCGTGTCTAACTACTTGATTATTAAGGCCTATAGTCGCAAGGGATTTTCTTTCTGGTTAAACAAGGGTTCAAGGATATCCATGAGATTAGAAGCTCACCCTACTCATGTAAATCAACTCCAAGTTGTCATGCTTAAAGGGGAACGGAAATTCGAAATACTGCAGCCGAAACAAACAAGTTCCGTGAATGCCTTTAATGAATCCAAAATTGGTAAAGAAGCTGAATATAGCATTGAGGAAGATGACAGGTACTACCTTGACATCATAAACACAAATCCTAGAAGCATAATCATACAGATGAGTGTAAATGTTTCGTCGAAGATGCATGATACTACGAATGCTAAGGCCATCTGCTCGACAGAAAATAAGACTTCTTCGTGCCAGCTCAGGCTTATATTCCCCAATACTCATCATGTCATACTGACCACACCTAACAATGGGGATCTTCTTGGATGGTACATCGAGCTTTCTTTTGTGGCTCGTGTGATAACATATATTGGAATTTTAGGGTTTATAGTGGTCATGATCTTTCTAATATTGAAATACCTTGGTGCCTGTGATGCTGAGAGTAGTACTGTAGTAGAAGACACAAGACAAGAAATTAATGAGACTTATCCTATAGTGCCACGCAAGACAGTTCCACAAACATATGGTACAAATGAAGAAGATGATGATTCAGGAGCTTCGAGTAGCTCCTCAGAGGAATTATATGATGAGAAGCTATGCGTGATTTGTTATGATGAGCAGCGGAACTGCTTCTTCGTTCCTTGTGGTCACTGTGCTACCTGCTATGACTGTGCACAGAGATACTTGTTCATTGAGAGAATGGAGAATGCGTCAAGTCTTGGAAACTTCAACCGCTTGGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF4792 DUF4793 zf-C3HC4_3

Protein Analysis

385

Amino Acids

43.9

Weight (kDa)

6.11

Isoelectric Point (pI)

43.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APD1-4_N	PF16040	78 - 146	1.5e-16	E3 ubiquitin-protein ligase APD1-4, N-terminal
APD1-4_M	PF16041	169 - 273	4e-23	E3 ubiquitin-protein ligase APD1-4, middle domain
zf-C3HC4_3	PF13920	334 - 365	2.8e-10	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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002655)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24204 AT4G24204 AT4G24204
fragaria_vesca	FvH4_1g16990 FvH4_1g16990 FvH4_1g16990 FvH4_1g16990 FvH4_1g16990 FvH4_1g16990 FvH4_1g16990 FvH4_2g33452 FvH4_2g33452 FvH4_2g33452
malus_domestica	MD08G1089900.v1.1 MD15G1074300.v1.1 MD15G1291000.v1.1
prunus_persica	Prupe.1G427200_v2.0.a1 Prupe.6G226000_v2.0.a1
pyrus_communis	pycom02g14610 pycom08g07330 pycom15g06950 pycom15g25460
rosa_chinensis	RchiOBHm_Chr2g0107111 RchiOBHm_Chr6g0309061
rosa_laevigata	RLG00000010593 RLG00000017555
rosa_multiflora	Rmu_sc0002945.1_g000008
rosa_roxburghii	Rroxscaffold_2G00136600
rosa_rugosa	Rorug02G0140300 Rorug06G0369400
rosa_samantha	Rh2AG191200 Rh2BG202900 Rh2CG196200 Rh2DG198400 Rh6AG482100 Rh6BG490900 Rh6CG496000 Rh6DG482600
rosa_wichuraiana	Rw2G015100 Rw6G041970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1079
AccB1I	GGYRCC	1 cut(s)	836
AccII	CGCG	1 cut(s)	166
AciI	CCGC	3 cut(s)	46, 1033, 1144
AclWI	GGATC	1 cut(s)	735
AcsI	RAATTY	2 cut(s)	434, 786
AcuI	CTGAAG	1 cut(s)	273
AfaI	GTAC	5 cut(s)	195, 536, 743, 859, 940
AfiI	CCNNNNNNNGG	1 cut(s)	722
AgsI	TTSAA	3 cut(s)	357, 826, 1141
AjuI	GAANNNNNNNTTGG	2 cut(s)	477, 509
Alw21I	GWGCWC	1 cut(s)	1087
Alw26I	GTCTC	3 cut(s)	50, 126, 887
Alw44I	GTGCAC	1 cut(s)	1083
AlwI	GGATC	1 cut(s)	735
AoxI	GGCC	4 cut(s)	37, 151, 312, 630
ApaLI	GTGCAC	1 cut(s)	1083
ApeKI	GCWGC	2 cut(s)	448, 1030
ApoI	RAATTY	2 cut(s)	434, 786
AseI	ATTAAT	1 cut(s)	888
Asp700I	GAANNNNTTC	1 cut(s)	1040
AspLEI	GCGC	2 cut(s)	22, 168
AspS9I	GGNCC	2 cut(s)	38, 152
AsuHPI	GGTGA	3 cut(s)	76, 118, 374
AsuII	TTCGAA	1 cut(s)	438
BaeGI	GKGCMC	1 cut(s)	1087
BanI	GGYRCC	1 cut(s)	836
BanII	GRGCYC	1 cut(s)	67
BauI	CACGAG	1 cut(s)	765
BbsI	GAAGAC	1 cut(s)	876
Bbv12I	GWGCWC	1 cut(s)	1087
BbvCI	CCTCAGC	1 cut(s)	42
BbvI	GCAGC	2 cut(s)	460, 1042
BccI	CCATC	2 cut(s)	641, 732
BcoDI	GTCTC	3 cut(s)	50, 126, 887
BfaI	CTAG	2 cut(s)	180, 564
BfmI	CTRYAG	4 cut(s)	316, 446, 861, 903
BfuAI	ACCTGC	1 cut(s)	1079
BisI	GCNGC	2 cut(s)	449, 1031
BlsI	GCNGC	2 cut(s)	450, 1032
BmcAI	AGTACT	1 cut(s)	859
BmgT120I	GGNCC	2 cut(s)	38, 152
BmiI	GGNNCC	1 cut(s)	838
BmsI	GCATC	2 cut(s)	597, 835
BpiI	GAAGAC	1 cut(s)	876
Bpu10I	CCTNAGC	3 cut(s)	42, 627, 671
Bpu14I	TTCGAA	1 cut(s)	438
BsaAI	YACGTR	1 cut(s)	15
BsaJI	CCNNGG	1 cut(s)	832
BsaWI	WCCGGW	1 cut(s)	31
BsaXI	ACNNNNNCTCC	2 cut(s)	1106, 1136
Bsc4I	CCNNNNNNNGG	1 cut(s)	722
BseDI	CCNNGG	1 cut(s)	832
BseGI	GGATG	1 cut(s)	743
BseLI	CCNNNNNNNGG	1 cut(s)	722
BseMII	CTCAG	4 cut(s)	56, 685, 840, 996
BseRI	GAGGAG	2 cut(s)	151, 970
BseSI	GKGCMC	1 cut(s)	1087
BseXI	GCAGC	2 cut(s)	460, 1042
Bsh1236I	CGCG	1 cut(s)	166
BshFI	GGCC	4 cut(s)	39, 153, 314, 632
BshNI	GGYRCC	1 cut(s)	836
BsiHKAI	GWGCWC	1 cut(s)	1087
BsiSI	CCGG	1 cut(s)	32
BslI	CCNNNNNNNGG	1 cut(s)	722
BsmAI	GTCTC	3 cut(s)	50, 126, 887
BsmI	GAATGC	5 cut(s)	22, 111, 478, 628, 1123
BsnI	GGCC	4 cut(s)	39, 153, 314, 632
Bsp119I	TTCGAA	1 cut(s)	438
Bsp1286I	GDGCHC	2 cut(s)	67, 1087
Bsp1407I	TGTACA	1 cut(s)	193
Bsp143I	GATC	2 cut(s)	727, 810
BspACI	CCGC	3 cut(s)	46, 1033, 1144
BspANI	GGCC	4 cut(s)	39, 153, 314, 632
BspCNI	CTCAG	4 cut(s)	55, 684, 841, 995
BspFNI	CGCG	1 cut(s)	166
BspHI	TCATGA	1 cut(s)	807
BspLI	GGNNCC	1 cut(s)	838
BspMAI	CTGCAG	1 cut(s)	450
BspMI	ACCTGC	1 cut(s)	1079
BspPI	GGATC	1 cut(s)	735
BspQI	GCTCTTC	1 cut(s)	249
BspT104I	TTCGAA	1 cut(s)	438
BspT107I	GGYRCC	1 cut(s)	836
BsrGI	TGTACA	1 cut(s)	193
BssECI	CCNNGG	1 cut(s)	832
BssMI	GATC	2 cut(s)	727, 810
BssSI	CACGAG	1 cut(s)	765
BssT1I	CCWWGG	1 cut(s)	832
Bst2BI	CACGAG	1 cut(s)	765
Bst4CI	ACNGT	5 cut(s)	140, 862, 922, 1064, 1082
Bst6I	CTCTTC	1 cut(s)	249
BstAUI	TGTACA	1 cut(s)	193
BstBAI	YACGTR	1 cut(s)	15
BstBI	TTCGAA	1 cut(s)	438
BstC8I	GCNNGC	2 cut(s)	67, 668
BstDEI	CTNAG	6 cut(s)	42, 261, 627, 671, 849, 982
BstF5I	GGATG	1 cut(s)	743
BstFNI	CGCG	1 cut(s)	166
BstHHI	GCGC	2 cut(s)	22, 168
BstKTI	GATC	2 cut(s)	730, 813
BstMAI	GTCTC	3 cut(s)	50, 126, 887
BstMBI	GATC	2 cut(s)	727, 810
BstMWI	GCNNNNNNNGC	2 cut(s)	165, 845
BstSFI	CTRYAG	4 cut(s)	316, 446, 861, 903
BstSLI	GKGCMC	1 cut(s)	1087
BstUI	CGCG	1 cut(s)	166
BstV1I	GCAGC	2 cut(s)	460, 1042
BstV2I	GAAGAC	1 cut(s)	876
BstX2I	RGATCY	1 cut(s)	727
BstYI	RGATCY	1 cut(s)	727
BsuRI	GGCC	4 cut(s)	39, 153, 314, 632
BtsCI	GGATG	1 cut(s)	743
BtsIMutI	CAGTG	1 cut(s)	1060
BveI	ACCTGC	1 cut(s)	1079
Cac8I	GCNNGC	2 cut(s)	67, 668
CciI	TCATGA	1 cut(s)	807
CfoI	GCGC	2 cut(s)	22, 168
Cfr13I	GGNCC	2 cut(s)	38, 152
CseI	GACGC	1 cut(s)	1110
Csp6I	GTAC	5 cut(s)	194, 535, 742, 858, 939
CviAII	CATG	6 cut(s)	367, 392, 415, 611, 698, 808
CviQI	GTAC	5 cut(s)	194, 535, 742, 858, 939
DdeI	CTNAG	6 cut(s)	42, 261, 627, 671, 849, 982
DpnI	GATC	2 cut(s)	729, 812
DpnII	GATC	2 cut(s)	727, 810
Eam1104I	CTCTTC	1 cut(s)	249
EarI	CTCTTC	1 cut(s)	249
Eco130I	CCWWGG	1 cut(s)	832
Eco147I	AGGCCT	1 cut(s)	314
Eco24I	GRGCYC	1 cut(s)	67
Eco32I	GATATC	1 cut(s)	363
Eco57I	CTGAAG	1 cut(s)	273
EcoRV	GATATC	1 cut(s)	363
EcoT14I	CCWWGG	1 cut(s)	832
EcoT22I	ATGCAT	1 cut(s)	612
EcoT38I	GRGCYC	1 cut(s)	67
ErhI	CCWWGG	1 cut(s)	832
FaeI	CATG	6 cut(s)	370, 395, 418, 614, 701, 811
FatI	CATG	6 cut(s)	366, 391, 414, 610, 697, 807
FauNDI	CATATG	1 cut(s)	934
Fnu4HI	GCNGC	2 cut(s)	449, 1031
FokI	GGATG	1 cut(s)	750
FriOI	GRGCYC	1 cut(s)	67
Fsp4HI	GCNGC	2 cut(s)	449, 1031
FspBI	CTAG	2 cut(s)	180, 564
GlaI	GCGC	2 cut(s)	21, 167
GluI	GCNGC	2 cut(s)	449, 1031
HaeIII	GGCC	4 cut(s)	39, 153, 314, 632
HapII	CCGG	1 cut(s)	32
HgaI	GACGC	1 cut(s)	1110
HhaI	GCGC	2 cut(s)	22, 168
Hin1II	CATG	6 cut(s)	370, 395, 418, 614, 701, 811
Hin6I	GCGC	2 cut(s)	20, 166
HinP1I	GCGC	2 cut(s)	20, 166
HinfI	GANTC	3 cut(s)	28, 485, 959
HpaII	CCGG	1 cut(s)	32
HphI	GGTGA	3 cut(s)	76, 118, 374
Hpy166II	GTNNAC	1 cut(s)	1085
Hpy188I	TCNGA	2 cut(s)	253, 985
Hpy188III	TCNNGA	2 cut(s)	808, 963
Hpy8I	GTNNAC	1 cut(s)	1085
Hpy99I	CGWCG	1 cut(s)	604
HpyCH4III	ACNGT	5 cut(s)	140, 862, 922, 1064, 1082
HpyCH4IV	ACGT	1 cut(s)	14
HpyCH4V	TGCA	3 cut(s)	448, 610, 1085
HpyF10VI	GCNNNNNNNGC	2 cut(s)	165, 845
HpyF3I	CTNAG	6 cut(s)	42, 261, 627, 671, 849, 982
HpySE526I	ACGT	1 cut(s)	14
Hsp92II	CATG	6 cut(s)	370, 395, 418, 614, 701, 811
HspAI	GCGC	2 cut(s)	20, 166
Kzo9I	GATC	2 cut(s)	727, 810
LguI	GCTCTTC	1 cut(s)	249
LmnI	GCTCC	5 cut(s)	145, 164, 285, 965, 983
LpnPI	CCDG	8 cut(s)	45, 325, 517, 658, 680, 853, 948, 1084
Lsp1109I	GCAGC	2 cut(s)	460, 1042
LweI	GCATC	2 cut(s)	597, 835
MaeI	CTAG	2 cut(s)	180, 564
MaeII	ACGT	1 cut(s)	14
MaeIII	GTNAC	1 cut(s)	1058
MalI	GATC	2 cut(s)	729, 812
MboI	GATC	2 cut(s)	727, 810
MboII	GAAGA	9 cut(s)	266, 536, 616, 651, 722, 881, 959, 962, 1036
MflI	RGATCY	1 cut(s)	727
MhlI	GDGCHC	2 cut(s)	67, 1087
MluCI	AATT	6 cut(s)	280, 434, 492, 786, 885, 989
MlyI	GAGTC	1 cut(s)	22
MnlI	CCTC	6 cut(s)	51, 168, 172, 514, 979, 991
Mph1103I	ATGCAT	1 cut(s)	612
MroXI	GAANNNNTTC	1 cut(s)	1040
MseI	TTAA	5 cut(s)	309, 344, 420, 480, 888
MslI	CAYNNNNRTG	1 cut(s)	581
MspA1I	CMGCKG	2 cut(s)	46, 1033
MspI	CCGG	1 cut(s)	32
Mva1269I	GAATGC	5 cut(s)	22, 111, 478, 628, 1123
MvnI	CGCG	1 cut(s)	166
MwoI	GCNNNNNNNGC	2 cut(s)	165, 845
NdeI	CATATG	1 cut(s)	934
NdeII	GATC	2 cut(s)	727, 810
NlaIII	CATG	6 cut(s)	370, 395, 418, 614, 701, 811
NlaIV	GGNNCC	1 cut(s)	838
NmuCI	GTSAC	1 cut(s)	1058
NsiI	ATGCAT	1 cut(s)	612
NspV	TTCGAA	1 cut(s)	438
PagI	TCATGA	1 cut(s)	807
PceI	AGGCCT	1 cut(s)	314
PciSI	GCTCTTC	1 cut(s)	249
PctI	GAATGC	5 cut(s)	22, 111, 478, 628, 1123
PdmI	GAANNNNTTC	1 cut(s)	1040
PfeI	GAWTC	2 cut(s)	485, 959
PkrI	GCNGC	2 cut(s)	450, 1032
PleI	GAGTC	1 cut(s)	22
PpsI	GAGTC	1 cut(s)	22
Ppu21I	YACGTR	1 cut(s)	15
PshBI	ATTAAT	1 cut(s)	888
PspN4I	GGNNCC	1 cut(s)	838
PspPI	GGNCC	2 cut(s)	38, 152
PstI	CTGCAG	1 cut(s)	450
PsuI	RGATCY	1 cut(s)	727
RsaI	GTAC	5 cut(s)	195, 536, 743, 859, 940
RsaNI	GTAC	5 cut(s)	194, 535, 742, 858, 939
RseI	CAYNNNNRTG	1 cut(s)	581
SapI	GCTCTTC	1 cut(s)	249
SaqAI	TTAA	5 cut(s)	309, 344, 420, 480, 888
SatI	GCNGC	2 cut(s)	449, 1031
Sau3AI	GATC	2 cut(s)	727, 810
Sau96I	GGNCC	2 cut(s)	38, 152
ScaI	AGTACT	1 cut(s)	859
SchI	GAGTC	1 cut(s)	22
SduI	GDGCHC	2 cut(s)	67, 1087
SfaNI	GCATC	2 cut(s)	597, 835
SfcI	CTRYAG	4 cut(s)	316, 446, 861, 903
SfuI	TTCGAA	1 cut(s)	438
SmiMI	CAYNNNNRTG	1 cut(s)	581
Sse9I	AATT	6 cut(s)	280, 434, 492, 786, 885, 989
SseBI	AGGCCT	1 cut(s)	314
SsiI	CCGC	3 cut(s)	46, 1033, 1144
SspI	AATATT	1 cut(s)	822
SspMI	CTAG	2 cut(s)	180, 564
StuI	AGGCCT	1 cut(s)	314
StyI	CCWWGG	1 cut(s)	832
TaaI	ACNGT	5 cut(s)	140, 862, 922, 1064, 1082
TaiI	ACGT	1 cut(s)	17
TaqI	TCGA	8 cut(s)	7, 26, 115, 438, 602, 641, 747, 971
TasI	AATT	6 cut(s)	280, 434, 492, 786, 885, 989
TatI	WGTACW	2 cut(s)	193, 857
TfiI	GAWTC	2 cut(s)	485, 959
Tru1I	TTAA	5 cut(s)	309, 344, 420, 480, 888
Tru9I	TTAA	5 cut(s)	309, 344, 420, 480, 888
TscAI	CASTG	1 cut(s)	1067
TseFI	GTSAC	1 cut(s)	1058
TseI	GCWGC	2 cut(s)	448, 1030
Tsp45I	GTSAC	1 cut(s)	1058
TspDTI	ATGAA	3 cut(s)	498, 960, 1090
TspGWI	ACGGA	2 cut(s)	445, 457
TspRI	CASTG	1 cut(s)	1067
VneI	GTGCAC	1 cut(s)	1083
VspI	ATTAAT	1 cut(s)	888
XapI	RAATTY	2 cut(s)	434, 786
XmnI	GAANNNNTTC	1 cut(s)	1040
XspI	CTAG	2 cut(s)	180, 564
ZrmI	AGTACT	1 cut(s)	859
Zsp2I	ATGCAT	1 cut(s)	612

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