Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000310

Physical Location & Seq

Genomic Coordinates Reverse (-)

45184325 .. 45187204

Gene Structure 2880 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013987

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGGAGAAGCCGATCTACGACACAGTAAAAGAGGATGAGTACGACGCCATCATCGCCAAGCAGAGCGAGGAGTTCGAGGACGACGACGGCCTAGGGTACAGCGACGACGGAGAGGAAGAGGACTGGTCCCGCAGGGGGCTTCCGACGTCGTCAGATGAATCAGACGGCGATATGAGGCCCTGGAGGAAGAAGACGGTGGAGAAGAAGGAGAAGGAGCTGCGGCCCAAAAAGCCCAATTCGTCGCTTATAGCGGCGGCGGCGATGATGGGGAAGCAGAGGCTTTTGTCGATGTTCACGTCGTCGGTGTTTAATAAAAGACATGTAGCCCATGCTGCACCATTTTCCATCACACTCCCACACCAACCACCGCCGGGATCACCAATGAATATGAATTCGGCATTACCTCCAATTTCACTGTCTAATGCATCAAGAATTGGTTGCACTCATCCGGTCTATGTGAGAACAAGCCGCATGCCCTACAAAGTCCCTTTAGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0003896 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005658 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006270 GO:0006271 GO:0006272 GO:0006273 GO:0006281 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009965 GO:0009987 GO:0010016 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0022616 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0032993 GO:0033554 GO:0034061 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0051716 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0071897 GO:0090304 GO:0097747 GO:0099402 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1905392 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_pol_B DNA_pol_B_exo1 DNA_pol_alpha_N zf-DNA_Pol

Protein Analysis

166

Amino Acids

18.49

Weight (kDa)

6.1

Isoelectric Point (pI)

61.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_alpha_N	PF12254	2 - 42	2.7e-09	DNA polymerase alpha subunit p180 N terminal

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: OG0000310)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G67100 AT5G67100
fragaria_vesca	FvH4_1g20001 FvH4_1g22730 FvH4_1g22730 FvH4_1g22730 FvH4_6g13861 FvH4_6g33603
malus_domestica	MD02G1174100.v1.1 MD02G1174200.v1.1 MD02G1174400.v1.1 MD15G1285400.v1.1
prunus_persica	Prupe.7G131600_v2.0.a1
pyrus_communis	pycom02g14040 pycom02g14050 pycom02g14060 pycom02g14070 pycom15g24830 pycom15g24840
rosa_chinensis	RchiOBHm_Chr2g0109901 RchiOBHm_Chr2g0117021 RchiOBHm_Chr2g0168121 RchiOBHm_Chr4g0394581
rosa_laevigata	RLG00000001621 RLG00000001943 RLG00000003450 RLG00000006116 RLG00000006535 RLG00000008147 RLG00000009121 RLG00000010680 RLG00000013987 RLG00000017585 RLG00000017603 RLG00000017638 RLG00000017923 RLG00000018320 RLG00000021520 RLG00000022613 RLG00000022614 RLG00000023966 RLG00000025998 RLG00000027760 RLG00000033421
rosa_multiflora	Rmu_co7985806.1_g000001 Rmu_co8250293.1_g000001 Rmu_co8353517.1_g000001 Rmu_sc0000697.1_g000011 Rmu_sc0000776.1_g000079 Rmu_sc0001023.1_g000057 Rmu_sc0001266.1_g000019 Rmu_sc0002711.1_g000010 Rmu_sc0002731.1_g000005 Rmu_sc0003002.1_g000047 Rmu_sc0003030.1_g000002 Rmu_sc0003672.1_g000003 Rmu_sc0004168.1_g000062 Rmu_sc0004180.1_g000003 Rmu_sc0009205.1_g000008 Rmu_sc0011259.1_g000001 Rmu_sc0011259.1_g000002 Rmu_sc0027274.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023520 Rroxscaffold_2G00104450 Rroxscaffold_2G00126810 Rroxscaffold_2G00144870 Rroxscaffold_4G00315680 Rroxscaffold_4G00331480 Rroxscaffold_7G00182820
rosa_rugosa	Rorug02G0209600 Rorug04G0130600 Rorug04G0130600 Rorug04G0130700 Rorug05G0230000
rosa_samantha	Rh1AG170000 Rh1CG157700 Rh1CG385600 Rh2AG215100 Rh2AG265500 Rh2BG277300 Rh2CG217600 Rh2CG217700 Rh2DG220600 Rh2DG272800 Rh2DG291800 Rh3AG215700 Rh3BG271700 Rh3DG075200 Rh3DG242600 Rh4AG115400 Rh4AG138100 Rh4AG333600 Rh4BG115100 Rh4BG366300 Rh4CG125400 Rh4CG380400 Rh4DG083500 Rh4DG113200 Rh4DG192900 Rh4DG246300 Rh5AG075000 Rh5BG482300 Rh5CG181200 Rh5CG247200 Rh5CG506900 Rh5DG167600 Rh5DG202900 Rh6AG000500 Rh6AG213400 Rh6BG335800 Rh6CG255700 Rh7AG337500 Rh7BG404500 Rh7BG461500 Rh7CG355600
rosa_wichuraiana	Rw0G019110 Rw2G020950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	149
AciI	CCGC	7 cut(s)	130, 220, 251, 254, 257, 368, 469
AclWI	GGATC	1 cut(s)	382
AcsI	RAATTY	1 cut(s)	391
AcyI	GRCGYC	2 cut(s)	45, 146
AfaI	GTAC	2 cut(s)	41, 98
AfiI	CCNNNNNNNGG	2 cut(s)	135, 371
AflIII	ACRYGT	1 cut(s)	319
AjiI	CACGTC	1 cut(s)	297
AjnI	CCWGG	1 cut(s)	179
AluBI	AGCT	2 cut(s)	217, 494
AluI	AGCT	2 cut(s)	217, 494
AlwI	GGATC	1 cut(s)	382
AoxI	GGCC	3 cut(s)	88, 176, 221
ApeKI	GCWGC	2 cut(s)	217, 332
ApoI	RAATTY	1 cut(s)	391
AspA2I	CCTAGG	1 cut(s)	91
AspS9I	GGNCC	3 cut(s)	126, 177, 222
AsuC2I	CCSGG	1 cut(s)	372
AsuHPI	GGTGA	1 cut(s)	369
AvaII	GGWCC	1 cut(s)	126
AvrII	CCTAGG	1 cut(s)	91
BarI	GAAGNNNNNNTAC	1 cut(s)	31
BbsI	GAAGAC	1 cut(s)	197
BbvI	GCAGC	2 cut(s)	204, 319
BccI	CCATC	3 cut(s)	56, 259, 353
BceAI	ACGGC	2 cut(s)	103, 181
BciT130I	CCWGG	1 cut(s)	181
BcnI	CCSGG	1 cut(s)	372
BfaI	CTAG	1 cut(s)	92
BisI	GCNGC	7 cut(s)	218, 221, 252, 255, 258, 333, 469
BlnI	CCTAGG	1 cut(s)	91
BlsI	GCNGC	7 cut(s)	219, 222, 253, 256, 259, 334, 470
Bme1390I	CCNGG	2 cut(s)	181, 372
Bme18I	GGWCC	1 cut(s)	126
BmgBI	CACGTC	1 cut(s)	297
BmgT120I	GGNCC	3 cut(s)	126, 177, 222
BmiI	GGNNCC	1 cut(s)	128
BmrFI	CCNGG	2 cut(s)	181, 372
BmsI	GCATC	1 cut(s)	434
BpiI	GAAGAC	1 cut(s)	197
BpmI	CTGGAG	1 cut(s)	202
BpuMI	CCSGG	1 cut(s)	372
BsaHI	GRCGYC	2 cut(s)	45, 146
BsaJI	CCNNGG	2 cut(s)	91, 179
BsaWI	WCCGGW	1 cut(s)	448
Bsc4I	CCNNNNNNNGG	2 cut(s)	135, 371
Bse1I	ACTGG	1 cut(s)	128
BseBI	CCWGG	1 cut(s)	181
BseDI	CCNNGG	2 cut(s)	91, 179
BseGI	GGATG	2 cut(s)	40, 445
BseLI	CCNNNNNNNGG	2 cut(s)	135, 371
BseNI	ACTGG	1 cut(s)	128
BseRI	GAGGAG	1 cut(s)	83
BseXI	GCAGC	2 cut(s)	204, 319
BsgI	GTGCAG	1 cut(s)	318
BshFI	GGCC	3 cut(s)	90, 178, 223
BsiSI	CCGG	2 cut(s)	371, 449
BslFI	GGGAC	2 cut(s)	112, 470
BslI	CCNNNNNNNGG	2 cut(s)	135, 371
BsmFI	GGGAC	2 cut(s)	112, 470
BsnI	GGCC	3 cut(s)	90, 178, 223
Bsp143I	GATC	2 cut(s)	12, 374
BspACI	CCGC	7 cut(s)	130, 220, 251, 254, 257, 368, 469
BspANI	GGCC	3 cut(s)	90, 178, 223
BspLI	GGNNCC	1 cut(s)	128
BspPI	GGATC	1 cut(s)	382
BsrI	ACTGG	1 cut(s)	128
BssECI	CCNNGG	2 cut(s)	91, 179
BssMI	GATC	2 cut(s)	12, 374
BssNI	GRCGYC	2 cut(s)	45, 146
BssT1I	CCWWGG	1 cut(s)	91
Bst2UI	CCWGG	1 cut(s)	181
Bst4CI	ACNGT	3 cut(s)	25, 196, 417
Bst6I	CTCTTC	1 cut(s)	111
BstACI	GRCGYC	2 cut(s)	45, 146
BstC8I	GCNNGC	1 cut(s)	473
BstF5I	GGATG	2 cut(s)	40, 445
BstKTI	GATC	2 cut(s)	15, 377
BstMBI	GATC	2 cut(s)	12, 374
BstMWI	GCNNNNNNNGC	4 cut(s)	53, 229, 257, 332
BstNI	CCWGG	1 cut(s)	181
BstNSI	RCATGY	2 cut(s)	323, 475
BstSCI	CCNGG	2 cut(s)	179, 370
BstV1I	GCAGC	2 cut(s)	204, 319
BstV2I	GAAGAC	1 cut(s)	197
BsuRI	GGCC	3 cut(s)	90, 178, 223
BtgZI	GCGATG	2 cut(s)	37, 275
BtrI	CACGTC	1 cut(s)	297
BtsCI	GGATG	2 cut(s)	40, 445
BtsIMutI	CAGTG	1 cut(s)	413
Cac8I	GCNNGC	1 cut(s)	473
Cfr13I	GGNCC	3 cut(s)	126, 177, 222
CseI	GACGC	1 cut(s)	53
Csp6I	GTAC	2 cut(s)	40, 97
CviAII	CATG	3 cut(s)	320, 329, 472
CviQI	GTAC	2 cut(s)	40, 97
DpnI	GATC	2 cut(s)	14, 376
DpnII	GATC	2 cut(s)	12, 374
Eam1104I	CTCTTC	1 cut(s)	111
EarI	CTCTTC	1 cut(s)	111
Eco130I	CCWWGG	1 cut(s)	91
Eco47I	GGWCC	1 cut(s)	126
EcoO109I	RGGNCCY	1 cut(s)	177
EcoRI	GAATTC	1 cut(s)	391
EcoRII	CCWGG	1 cut(s)	179
EcoT14I	CCWWGG	1 cut(s)	91
EcoT22I	ATGCAT	1 cut(s)	427
ErhI	CCWWGG	1 cut(s)	91
FaeI	CATG	3 cut(s)	323, 332, 475
FaiI	YATR	7 cut(s)	173, 248, 321, 330, 389, 456, 473
FaqI	GGGAC	2 cut(s)	112, 470
FatI	CATG	3 cut(s)	319, 328, 471
FauI	CCCGC	1 cut(s)	137
Fnu4HI	GCNGC	7 cut(s)	218, 221, 252, 255, 258, 333, 469
FokI	GGATG	2 cut(s)	47, 432
Fsp4HI	GCNGC	7 cut(s)	218, 221, 252, 255, 258, 333, 469
FspBI	CTAG	1 cut(s)	92
GluI	GCNGC	7 cut(s)	218, 221, 252, 255, 258, 333, 469
GsuI	CTGGAG	1 cut(s)	202
HaeIII	GGCC	3 cut(s)	90, 178, 223
HapII	CCGG	2 cut(s)	371, 449
HgaI	GACGC	1 cut(s)	53
Hin1I	GRCGYC	2 cut(s)	45, 146
Hin1II	CATG	3 cut(s)	323, 332, 475
HinfI	GANTC	1 cut(s)	158
HpaII	CCGG	2 cut(s)	371, 449
HphI	GGTGA	1 cut(s)	369
Hpy166II	GTNNAC	1 cut(s)	294
Hpy188I	TCNGA	3 cut(s)	144, 154, 163
Hpy188III	TCNNGA	1 cut(s)	429
Hpy8I	GTNNAC	1 cut(s)	294
HpyAV	CCTTC	2 cut(s)	199, 205
HpyCH4III	ACNGT	3 cut(s)	25, 196, 417
HpyCH4IV	ACGT	2 cut(s)	146, 296
HpyCH4V	TGCA	3 cut(s)	335, 425, 441
HpyF10VI	GCNNNNNNNGC	4 cut(s)	53, 229, 257, 332
HpySE526I	ACGT	2 cut(s)	146, 296
Hsp92I	GRCGYC	2 cut(s)	45, 146
Hsp92II	CATG	3 cut(s)	323, 332, 475
Kzo9I	GATC	2 cut(s)	12, 374
LmnI	GCTCC	1 cut(s)	214
LpnPI	CCDG	6 cut(s)	109, 118, 166, 193, 384, 462
Lsp1109I	GCAGC	2 cut(s)	204, 319
LweI	GCATC	1 cut(s)	434
MaeI	CTAG	1 cut(s)	92
MaeII	ACGT	2 cut(s)	146, 296
MalI	GATC	2 cut(s)	14, 376
MboI	GATC	2 cut(s)	12, 374
MboII	GAAGA	4 cut(s)	128, 199, 202, 214
MluCI	AATT	4 cut(s)	235, 391, 408, 432
MmeI	TCCRAC	1 cut(s)	167
MnlI	CCTC	9 cut(s)	25, 61, 70, 106, 112, 168, 177, 270, 414
Mph1103I	ATGCAT	1 cut(s)	427
MseI	TTAA	1 cut(s)	309
MspI	CCGG	2 cut(s)	371, 449
MspR9I	CCNGG	2 cut(s)	181, 372
MvaI	CCWGG	1 cut(s)	181
MwoI	GCNNNNNNNGC	4 cut(s)	53, 229, 257, 332
NciI	CCSGG	1 cut(s)	372
NdeII	GATC	2 cut(s)	12, 374
NlaIII	CATG	3 cut(s)	323, 332, 475
NlaIV	GGNNCC	1 cut(s)	128
NsiI	ATGCAT	1 cut(s)	427
NspI	RCATGY	2 cut(s)	323, 475
PaeI	GCATGC	1 cut(s)	475
PciI	ACATGT	1 cut(s)	319
PcsI	WCGNNNNNNNCGW	2 cut(s)	81, 293
PfeI	GAWTC	1 cut(s)	158
PflFI	GACNNNGTC	1 cut(s)	148
PkrI	GCNGC	7 cut(s)	219, 222, 253, 256, 259, 334, 470
PscI	ACATGT	1 cut(s)	319
Psp6I	CCWGG	1 cut(s)	179
PspGI	CCWGG	1 cut(s)	179
PspN4I	GGNNCC	1 cut(s)	128
PspPI	GGNCC	3 cut(s)	126, 177, 222
PsyI	GACNNNGTC	1 cut(s)	148
RsaI	GTAC	2 cut(s)	41, 98
RsaNI	GTAC	2 cut(s)	40, 97
SaqAI	TTAA	1 cut(s)	309
SatI	GCNGC	7 cut(s)	218, 221, 252, 255, 258, 333, 469
Sau3AI	GATC	2 cut(s)	12, 374
Sau96I	GGNCC	3 cut(s)	126, 177, 222
ScrFI	CCNGG	2 cut(s)	181, 372
SetI	ASST	5 cut(s)	149, 219, 299, 406, 496
SfaNI	GCATC	1 cut(s)	434
SinI	GGWCC	1 cut(s)	126
SphI	GCATGC	1 cut(s)	475
Sse9I	AATT	4 cut(s)	235, 391, 408, 432
SsiI	CCGC	7 cut(s)	130, 220, 251, 254, 257, 368, 469
SspMI	CTAG	1 cut(s)	92
StyD4I	CCNGG	2 cut(s)	179, 370
StyI	CCWWGG	1 cut(s)	91
TaaI	ACNGT	3 cut(s)	25, 196, 417
TaiI	ACGT	2 cut(s)	149, 299
TaqI	TCGA	2 cut(s)	75, 287
TasI	AATT	4 cut(s)	235, 391, 408, 432
TauI	GCSGC	5 cut(s)	223, 254, 257, 260, 471
TfiI	GAWTC	1 cut(s)	158
Tru1I	TTAA	1 cut(s)	309
Tru9I	TTAA	1 cut(s)	309
TscAI	CASTG	1 cut(s)	420
TseI	GCWGC	2 cut(s)	217, 332
TspDTI	ATGAA	3 cut(s)	171, 398, 404
TspGWI	ACGGA	1 cut(s)	123
TspRI	CASTG	1 cut(s)	420
Tth111I	GACNNNGTC	1 cut(s)	148
VpaK11BI	GGWCC	1 cut(s)	126
XapI	RAATTY	1 cut(s)	391
XceI	RCATGY	2 cut(s)	323, 475
XmaJI	CCTAGG	1 cut(s)	91
XspI	CTAG	1 cut(s)	92
ZraI	GACGTC	1 cut(s)	147
Zsp2I	ATGCAT	1 cut(s)	427

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