Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0000878

Physical Location & Seq

Genomic Coordinates Forward (+)

12463243 .. 12465059

Gene Structure 1817 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000017056

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGACCACCACAACAACAGCTGTCATGAGCTTCGGGGACGGCGACCATGGCGCTCTGGACTTGCCCACTTCCTTAATGGGCCCCACCCGGGTCCCTTCTCTGCCTCCTGACACCACCAGCTTCACCGCCGGGCATTACCACTCCCTGGCCGTCACTTCCGAAGGCCAGCTTTGGGCTTGGGGCCGAGACCTCGAGGCCCAGCTCTGCCGTGGAGGTCCTTCTCCGAGAGATTTGTGGAATGAACCAAGGAAAGTAACAGGATTGGATCAACTAAATGTTTGTTCTGCAATTGCATCCGGTGTCATTTCTGTGGCCATTGGAGATGGTGGTTCTTTGTGGGTTTGGGGAAAGTCGAAGCGTGGCCAGCTTGGTCTGGGAGAGCAAGTCACGGAGGCTGTGGTGCCTTCCCGAGTTGAAGCAGTTGCTGGAGAGAAAATAACAACCAACCGTGGATGCCGCAGGCAGTTCCATGTATCCAAAGAGCTGTTCTTGTCTGATCACTATGATGTTCACAGTGCTAATACCATTGAGGGAAAGAGTGTGGTTCACTCGTTCAAGAACTACACGAAGCTCGAAAATGTGGGAGCTGAGCATTACTACTGTTGA

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

RCC1 RCC1_2

Protein Analysis

202

Amino Acids

21.7

Weight (kDa)

6.22

Isoelectric Point (pI)

33.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	8 - 147	2.2e-24	RCC1-like domain
RCC1_2	PF13540	40 - 63	1.7e-06	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	110 - 147	9.8e-07	Regulator of chromosome condensation (RCC1) repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000878)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48330 AT5G48330
fragaria_vesca	FvH4_1g13040 FvH4_1g13050
malus_domestica	MD15G1259200.v1.1
prunus_persica	Prupe.7G156600_v2.0.a1 Prupe.7G156600_v2.0.a1
pyrus_communis	pycom15g22720
rosa_chinensis	RchiOBHm_Chr2g0101211 RchiOBHm_Chr2g0101221 RchiOBHm_Chr7g0240851 RchiOBHm_Chr7g0240861
rosa_laevigata	RLG00000000616 RLG00000000618 RLG00000017056 RLG00000017059 RLG00000017060 RLG00000017062
rosa_multiflora	Rmu_co8519839.1_g000002 Rmu_sc0002313.1_g000012 Rmu_sc0002313.1_g000015 Rmu_sc0002313.1_g000018 Rmu_sc0004821.1_g000018 Rmu_sc0004821.1_g000019 Rmu_sc0006314.1_g000013
rosa_roxburghii	Rroxscaffold_2G00141490 Rroxscaffold_3G00219530 Rroxscaffold_3G00219570
rosa_rugosa	Rorug02G0100200 Rorug07G0339600
rosa_samantha	Rh1CG150600 Rh2AG144700 Rh2AG144800 Rh2AG144900 Rh2AG145100 Rh2AG145200 Rh2AG145300 Rh2BG149500 Rh2BG149800 Rh2BG149900 Rh2BG150200 Rh2BG150400 Rh2BG150500 Rh2BG150600 Rh2CG151000 Rh2DG150200 Rh2DG150300 Rh2DG150500 Rh2DG150600 Rh2DG150700 Rh7AG493900 Rh7AG494000 Rh7AG494300 Rh7BG466000 Rh7CG512300 Rh7CG512400 Rh7CG512500 Rh7DG479000 Rh7DG479100 Rh7DG479200 Rh7DG479300
rosa_wichuraiana	Rw0G010690 Rw0G010700 Rw2G011320 Rw7G041790 Rw7G041810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	191
AccB1I	GGYRCC	1 cut(s)	400
AccB7I	CCANNNNNTGG	1 cut(s)	145
AciI	CCGC	2 cut(s)	126, 457
AclWI	GGATC	1 cut(s)	273
AcoI	YGGCCR	3 cut(s)	147, 312, 361
AfiI	CCNNNNNNNGG	3 cut(s)	88, 145, 172
AgsI	TTSAA	2 cut(s)	416, 556
AjnI	CCWGG	1 cut(s)	144
AjuI	GAANNNNNNNTTGG	2 cut(s)	470, 502
AluBI	AGCT	9 cut(s)	20, 30, 120, 169, 202, 367, 484, 571, 587
AluI	AGCT	9 cut(s)	20, 30, 120, 169, 202, 367, 484, 571, 587
Alw26I	GTCTC	1 cut(s)	180
AlwI	GGATC	1 cut(s)	273
AlwNI	CAGNNNCTG	1 cut(s)	425
Ama87I	CYCGRG	3 cut(s)	87, 191, 408
AoxI	GGCC	7 cut(s)	79, 147, 163, 181, 195, 312, 361
ApaI	GGGCCC	1 cut(s)	83
AspLEI	GCGC	1 cut(s)	53
AspS9I	GGNCC	6 cut(s)	79, 80, 91, 181, 196, 215
AsuC2I	CCSGG	3 cut(s)	88, 89, 130
AsuHPI	GGTGA	1 cut(s)	115
AvaI	CYCGRG	3 cut(s)	87, 191, 408
AvaII	GGWCC	2 cut(s)	91, 215
BaeGI	GKGCMC	1 cut(s)	83
BalI	TGGCCA	2 cut(s)	314, 363
BanI	GGYRCC	1 cut(s)	400
BanII	GRGCYC	1 cut(s)	83
BccI	CCATC	1 cut(s)	317
BceAI	ACGGC	3 cut(s)	55, 134, 192
BciT130I	CCWGG	1 cut(s)	146
BciVI	GTATCC	1 cut(s)	484
BclI	TGATCA	1 cut(s)	496
BcnI	CCSGG	3 cut(s)	88, 89, 130
BcoDI	GTCTC	1 cut(s)	180
BfoI	RGCGCY	1 cut(s)	54
BfuI	GTATCC	1 cut(s)	484
BisI	GCNGC	1 cut(s)	457
BlpI	GCTNAGC	1 cut(s)	588
BlsI	GCNGC	1 cut(s)	458
Bme1390I	CCNGG	4 cut(s)	88, 89, 130, 146
Bme18I	GGWCC	2 cut(s)	91, 215
BmeT110I	CYCGRG	3 cut(s)	87, 191, 408
BmgT120I	GGNCC	6 cut(s)	79, 80, 91, 181, 196, 215
BmiI	GGNNCC	6 cut(s)	81, 82, 92, 93, 182, 402
BmrFI	CCNGG	4 cut(s)	88, 89, 130, 146
BmsI	GCATC	2 cut(s)	302, 443
BpmI	CTGGAG	1 cut(s)	447
Bpu1102I	GCTNAGC	1 cut(s)	588
BpuMI	CCSGG	3 cut(s)	88, 89, 130
BsaI	GGTCTC	1 cut(s)	180
BsaJI	CCNNGG	6 cut(s)	46, 87, 144, 208, 245, 448
BsaWI	WCCGGW	1 cut(s)	296
BsaXI	ACNNNNNCTCC	2 cut(s)	369, 399
Bsc4I	CCNNNNNNNGG	3 cut(s)	88, 145, 172
BseBI	CCWGG	1 cut(s)	146
BseDI	CCNNGG	6 cut(s)	46, 87, 144, 208, 245, 448
BseGI	GGATG	2 cut(s)	293, 458
BseLI	CCNNNNNNNGG	3 cut(s)	88, 145, 172
BseMII	CTCAG	1 cut(s)	579
BseSI	GKGCMC	1 cut(s)	83
BseYI	CCCAGC	1 cut(s)	198
BshFI	GGCC	7 cut(s)	81, 149, 165, 183, 197, 314, 363
BshNI	GGYRCC	1 cut(s)	400
BsiHKCI	CYCGRG	3 cut(s)	87, 191, 408
BsiSI	CCGG	3 cut(s)	88, 129, 297
BslFI	GGGAC	2 cut(s)	50, 77
BslI	CCNNNNNNNGG	3 cut(s)	88, 145, 172
BsmAI	GTCTC	1 cut(s)	180
BsmFI	GGGAC	2 cut(s)	50, 77
BsnI	GGCC	7 cut(s)	81, 149, 165, 183, 197, 314, 363
Bso31I	GGTCTC	1 cut(s)	180
BsoBI	CYCGRG	3 cut(s)	87, 191, 408
Bsp120I	GGGCCC	1 cut(s)	79
Bsp1286I	GDGCHC	1 cut(s)	83
Bsp143I	GATC	2 cut(s)	265, 496
Bsp1720I	GCTNAGC	1 cut(s)	588
Bsp19I	CCATGG	1 cut(s)	46
BspACI	CCGC	2 cut(s)	126, 457
BspANI	GGCC	7 cut(s)	81, 149, 165, 183, 197, 314, 363
BspCNI	CTCAG	1 cut(s)	580
BspHI	TCATGA	1 cut(s)	24
BspLI	GGNNCC	6 cut(s)	81, 82, 92, 93, 182, 402
BspPI	GGATC	1 cut(s)	273
BspT107I	GGYRCC	1 cut(s)	400
BspTNI	GGTCTC	1 cut(s)	180
BssECI	CCNNGG	6 cut(s)	46, 87, 144, 208, 245, 448
BssMI	GATC	2 cut(s)	265, 496
BssT1I	CCWWGG	2 cut(s)	46, 245
Bst2UI	CCWGG	1 cut(s)	146
Bst4CI	ACNGT	3 cut(s)	449, 515, 602
BstC8I	GCNNGC	3 cut(s)	167, 365, 461
BstDEI	CTNAG	1 cut(s)	588
BstDSI	CCRYGG	3 cut(s)	46, 208, 448
BstF5I	GGATG	2 cut(s)	293, 458
BstH2I	RGCGCY	1 cut(s)	54
BstHHI	GCGC	1 cut(s)	53
BstKTI	GATC	2 cut(s)	268, 499
BstMAI	GTCTC	1 cut(s)	180
BstMBI	GATC	2 cut(s)	265, 496
BstMWI	GCNNNNNNNGC	2 cut(s)	48, 364
BstNI	CCWGG	1 cut(s)	146
BstSCI	CCNGG	4 cut(s)	86, 87, 128, 144
BstSLI	GKGCMC	1 cut(s)	83
BsuI	GTATCC	1 cut(s)	484
BsuRI	GGCC	7 cut(s)	81, 149, 165, 183, 197, 314, 363
BtgI	CCRYGG	3 cut(s)	46, 208, 448
BtsCI	GGATG	2 cut(s)	293, 458
BtsIMutI	CAGTG	1 cut(s)	520
Cac8I	GCNNGC	3 cut(s)	167, 365, 461
CaiI	CAGNNNCTG	1 cut(s)	425
CciI	TCATGA	1 cut(s)	24
CfoI	GCGC	1 cut(s)	53
Cfr13I	GGNCC	6 cut(s)	79, 80, 91, 181, 196, 215
Cfr9I	CCCGGG	1 cut(s)	87
CviAII	CATG	3 cut(s)	25, 47, 470
DdeI	CTNAG	1 cut(s)	588
DpnI	GATC	2 cut(s)	267, 498
DpnII	GATC	2 cut(s)	265, 496
EaeI	YGGCCR	3 cut(s)	147, 312, 361
Eco130I	CCWWGG	2 cut(s)	46, 245
Eco24I	GRGCYC	1 cut(s)	83
Eco31I	GGTCTC	1 cut(s)	180
Eco47I	GGWCC	2 cut(s)	91, 215
Eco88I	CYCGRG	3 cut(s)	87, 191, 408
EcoO109I	RGGNCCY	3 cut(s)	80, 91, 215
EcoRII	CCWGG	1 cut(s)	144
EcoT14I	CCWWGG	2 cut(s)	46, 245
EcoT38I	GRGCYC	1 cut(s)	83
ErhI	CCWWGG	2 cut(s)	46, 245
FaeI	CATG	3 cut(s)	28, 50, 473
FaiI	YATR	4 cut(s)	26, 48, 471, 504
FalI	AAGNNNNNCTT	2 cut(s)	153, 185
FaqI	GGGAC	2 cut(s)	50, 77
FatI	CATG	3 cut(s)	24, 46, 469
FbaI	TGATCA	1 cut(s)	496
Fnu4HI	GCNGC	1 cut(s)	457
FokI	GGATG	2 cut(s)	280, 465
FriOI	GRGCYC	1 cut(s)	83
Fsp4HI	GCNGC	1 cut(s)	457
GlaI	GCGC	1 cut(s)	52
GluI	GCNGC	1 cut(s)	457
GsaI	CCCAGC	1 cut(s)	202
GsuI	CTGGAG	1 cut(s)	447
HaeII	RGCGCY	1 cut(s)	54
HaeIII	GGCC	7 cut(s)	81, 149, 165, 183, 197, 314, 363
HapII	CCGG	3 cut(s)	88, 129, 297
HhaI	GCGC	1 cut(s)	53
Hin1II	CATG	3 cut(s)	28, 50, 473
Hin6I	GCGC	1 cut(s)	51
HinP1I	GCGC	1 cut(s)	51
HpaII	CCGG	3 cut(s)	88, 129, 297
HphI	GGTGA	1 cut(s)	115
Hpy166II	GTNNAC	2 cut(s)	511, 547
Hpy188I	TCNGA	3 cut(s)	160, 225, 496
Hpy188III	TCNNGA	5 cut(s)	25, 56, 107, 408, 556
Hpy8I	GTNNAC	2 cut(s)	511, 547
HpyAV	CCTTC	4 cut(s)	105, 155, 228, 414
HpyCH4III	ACNGT	3 cut(s)	449, 515, 602
HpyCH4V	TGCA	2 cut(s)	287, 293
HpyF10VI	GCNNNNNNNGC	2 cut(s)	48, 364
HpyF3I	CTNAG	1 cut(s)	588
Hsp92II	CATG	3 cut(s)	28, 50, 473
HspAI	GCGC	1 cut(s)	51
KflI	GGGWCCC	1 cut(s)	91
Ksp22I	TGATCA	1 cut(s)	496
Kzo9I	GATC	2 cut(s)	265, 496
LmnI	GCTCC	1 cut(s)	584
LweI	GCATC	2 cut(s)	302, 443
MaeIII	GTNAC	3 cut(s)	151, 253, 385
MalI	GATC	2 cut(s)	267, 498
MboI	GATC	2 cut(s)	265, 496
MfeI	CAATTG	1 cut(s)	288
MhlI	GDGCHC	1 cut(s)	83
MlsI	TGGCCA	2 cut(s)	314, 363
MluCI	AATT	1 cut(s)	288
MluNI	TGGCCA	2 cut(s)	314, 363
MnlI	CCTC	6 cut(s)	114, 187, 200, 206, 385, 523
Mox20I	TGGCCA	2 cut(s)	314, 363
MscI	TGGCCA	2 cut(s)	314, 363
MseI	TTAA	1 cut(s)	74
MslI	CAYNNNNRTG	2 cut(s)	308, 504
Msp20I	TGGCCA	2 cut(s)	314, 363
MspA1I	CMGCKG	1 cut(s)	20
MspI	CCGG	3 cut(s)	88, 129, 297
MspR9I	CCNGG	4 cut(s)	88, 89, 130, 146
MunI	CAATTG	1 cut(s)	288
MvaI	CCWGG	1 cut(s)	146
MwoI	GCNNNNNNNGC	2 cut(s)	48, 364
NciI	CCSGG	3 cut(s)	88, 89, 130
NcoI	CCATGG	1 cut(s)	46
NdeII	GATC	2 cut(s)	265, 496
NlaIII	CATG	3 cut(s)	28, 50, 473
NlaIV	GGNNCC	6 cut(s)	81, 82, 92, 93, 182, 402
NmeAIII	GCCGAG	1 cut(s)	209
NmuCI	GTSAC	2 cut(s)	151, 385
PaeR7I	CTCGAG	1 cut(s)	191
PagI	TCATGA	1 cut(s)	24
PcsI	WCGNNNNNNNCGW	1 cut(s)	39
PflMI	CCANNNNNTGG	1 cut(s)	145
PkrI	GCNGC	1 cut(s)	458
PpuMI	RGGWCCY	2 cut(s)	91, 215
Psp5II	RGGWCCY	2 cut(s)	91, 215
Psp6I	CCWGG	1 cut(s)	144
PspFI	CCCAGC	1 cut(s)	198
PspGI	CCWGG	1 cut(s)	144
PspN4I	GGNNCC	6 cut(s)	81, 82, 92, 93, 182, 402
PspOMI	GGGCCC	1 cut(s)	79
PspPI	GGNCC	6 cut(s)	79, 80, 91, 181, 196, 215
PspPPI	RGGWCCY	2 cut(s)	91, 215
PspXI	VCTCGAGB	1 cut(s)	191
PstNI	CAGNNNCTG	1 cut(s)	425
PvuII	CAGCTG	1 cut(s)	20
RseI	CAYNNNNRTG	2 cut(s)	308, 504
SaqAI	TTAA	1 cut(s)	74
SatI	GCNGC	1 cut(s)	457
Sau3AI	GATC	2 cut(s)	265, 496
Sau96I	GGNCC	6 cut(s)	79, 80, 91, 181, 196, 215
ScrFI	CCNGG	4 cut(s)	88, 89, 130, 146
SduI	GDGCHC	1 cut(s)	83
SfaNI	GCATC	2 cut(s)	302, 443
Sfr274I	CTCGAG	1 cut(s)	191
SinI	GGWCC	2 cut(s)	91, 215
SlaI	CTCGAG	1 cut(s)	191
SmaI	CCCGGG	1 cut(s)	89
SmiMI	CAYNNNNRTG	2 cut(s)	308, 504
SmlI	CTYRAG	1 cut(s)	191
SmoI	CTYRAG	1 cut(s)	191
Sse9I	AATT	1 cut(s)	288
SsiI	CCGC	2 cut(s)	126, 457
StyD4I	CCNGG	4 cut(s)	86, 87, 128, 144
StyI	CCWWGG	2 cut(s)	46, 245
TaaI	ACNGT	3 cut(s)	449, 515, 602
TaqI	TCGA	3 cut(s)	192, 353, 573
TasI	AATT	1 cut(s)	288
TauI	GCSGC	1 cut(s)	459
Tru1I	TTAA	1 cut(s)	74
Tru9I	TTAA	1 cut(s)	74
TscAI	CASTG	1 cut(s)	520
TseFI	GTSAC	2 cut(s)	151, 385
Tsp45I	GTSAC	2 cut(s)	151, 385
TspDTI	ATGAA	1 cut(s)	255
TspGWI	ACGGA	1 cut(s)	404
TspMI	CCCGGG	1 cut(s)	87
TspRI	CASTG	1 cut(s)	520
Van91I	CCANNNNNTGG	1 cut(s)	145
VpaK11BI	GGWCC	2 cut(s)	91, 215
XcmI	CCANNNNNNNNNTGG	2 cut(s)	73, 206
XhoI	CTCGAG	1 cut(s)	191
XmaI	CCCGGG	1 cut(s)	87

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