Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0005779

Physical Location & Seq

Genomic Coordinates Forward (+)

55116128 .. 55124293

Gene Structure 8166 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00260810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGCCTGGACACGAAGTTGCCAACGATGACATGATGATCAATGAGTATGAACAGAAGCAAGTGAATGCTGTTCCTGATGGATTTAACTCTCAGTATCTCAAAATTTACTATGGAAAGCTCTTCCCATATGAGGAAATGTTTAAGTGGATGTCCTATGCAAATGATGGCAAGCATCCTGCATGCAACCAGTCCTACTTTGGCCGGAGAGAGTTTTCTTTCACACTGGATAATGATGTTTATCTGCGGTACAAAACTTTTAACTCCGTGTCTGAGCTTGAAAATTCTATCAAAGAGAAGTGCCCCATCAAAATAGATATTGGGCCTGTGTACAATGTTGATCCTGCAAAGAGGCATTCCTATGCTCAAAGTGGTTGCTACCCCGAGGAGAGGGAACTGATTTTTGATATAGATATGTCAGATTACGATGATGTTAGATACTGCTGCTCAGGAGCTGATGTGTGCCTGGAGTGCTGGCCACTTATGACAATTGCTATCAAAGTGATTGACACTGCCCTTCGAGATGACTTTGGTTTCAATCACATTCTCTGGGTATATAGTGGCCGACGTGGTGTTCATTGTTGGGTTTGTGATGGGAAAGCTAGAAGGCTCACAAATGAACAGAGAGCAGCTATTGCTGACTATTTTCGTGTCTACAAGGTGGGCAACGAAAACAGTCATAAAAAGGTTTCTTTGATGGGCCCTGCTCTTCATCCATTCCTTGTGAGATCATATACCGAAGTTCTTAAGGATTTCTTTGAGAGGACATTGCTTTCCAGTCAAAAGATATTTTCTACTGCAGAAAGATATGAAAAGATCTTAGATATGATTCCTGATGAATCTGTCACTTCTGAGCTTCGGGGAAAGTGGCAAGATAATAGACGAACCTCCAATGCAAAAGAAGACATTAATGTTGCTCGTTGGGAGCAGATGAAACATTTGCTGCAATCTGGGAAACAGAAGATGCAAGGACTGCGTAGGTGCGTGGAGGAGATTGTGTTCTCTTATACCTACCCTAGACTTGACATGGAGGTTTCAAAACATATGAACCATTTATTAAAGGCACCATTCTGTGTACATCCAAAGACAGGTCGTGTTTGTGTTCCGATTGATCCCAACCGTTGTGAGGAGTTTGATCCTACTGCAGTTCCAACCCTTTCCACTCTTATAGAAGAACTTAATAATGAGGGTTTGACAGCAGAGGCTGATAACGAACGGGATAGAACGTCACTTGGAAAATCATTAAGATTCTTCCAATCATCATTTTTGGAGCCTTTGGTAAAATCTTGCAAGGAGGAGATGATAAGTTCCTACAATGCGAAACTGCAGCAGTCGAAGTTGCAGCAGTCAAAGAACGTGCTTGCTGCAATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003824 GO:0003896 GO:0003899 GO:0005488 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:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 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:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_primase_S

Protein Analysis

456

Amino Acids

52.89

Weight (kDa)

6.18

Isoelectric Point (pI)

51.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	134 - 370	3.3e-55	DNA primase small subunit

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: OG0005779)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G41880
fragaria_vesca	FvH4_5g04460
malus_domestica	MD06G1105400.v1.1
prunus_persica	Prupe.5G117700_v2.0.a1
pyrus_communis	pycom06g09970
rosa_chinensis	RchiOBHm_Chr7g0195041
rosa_laevigata	RLG00000004150 RLG00000008501 RLG00000015305
rosa_multiflora	Rmu_sc0002246.1_g000003
rosa_roxburghii	Rroxscaffold_3G00260810
rosa_rugosa	Rorug07G0020100 Rorug07G0020200
rosa_samantha	Rh6BG025100 Rh6BG025600 Rh6BG025700 Rh6BG026500 Rh6BG026600 Rh6CG024600 Rh6DG024100 Rh6DG024400 Rh7AG147700 Rh7BG148300 Rh7CG152000
rosa_wichuraiana	Rw2G021680 Rw5G042100 Rw6G002490 Rw7G012610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1060
AccI	GTMKAC	1 cut(s)	651
AciI	CCGC	1 cut(s)	244
AclWI	GGATC	3 cut(s)	332, 1103, 1127
AcoI	YGGCCR	3 cut(s)	199, 473, 559
AcsI	RAATTY	2 cut(s)	102, 280
AfaI	GTAC	3 cut(s)	248, 329, 1074
AfiI	CCNNNNNNNGG	4 cut(s)	130, 387, 1085, 1123
AflII	CTTAAG	1 cut(s)	743
AgsI	TTSAA	3 cut(s)	278, 535, 1035
AjiI	CACGTC	1 cut(s)	566
AjnI	CCWGG	2 cut(s)	4, 462
AloI	GAACNNNNNNTCC	2 cut(s)	980, 1012
AluBI	AGCT	6 cut(s)	118, 274, 452, 599, 629, 853
AluI	AGCT	6 cut(s)	118, 274, 452, 599, 629, 853
AlwI	GGATC	3 cut(s)	332, 1103, 1127
AlwNI	CAGNNNCTG	2 cut(s)	452, 1202
Ama87I	CYCGRG	1 cut(s)	380
AoxI	GGCC	5 cut(s)	199, 320, 473, 559, 697
ApaI	GGGCCC	1 cut(s)	701
ApeKI	GCWGC	6 cut(s)	441, 626, 940, 1324, 1339, 1361
ApoI	RAATTY	2 cut(s)	102, 280
AseI	ATTAAT	1 cut(s)	906
AspS9I	GGNCC	3 cut(s)	320, 697, 698
AvaI	CYCGRG	1 cut(s)	380
BaeGI	GKGCMC	2 cut(s)	302, 701
BalI	TGGCCA	1 cut(s)	475
BanI	GGYRCC	1 cut(s)	1060
BanII	GRGCYC	1 cut(s)	701
BbsI	GAAGAC	1 cut(s)	906
BbvI	GCAGC	6 cut(s)	428, 638, 927, 1336, 1348, 1351
BccI	CCATC	5 cut(s)	71, 158, 311, 584, 688
BciT130I	CCWGG	2 cut(s)	6, 464
BclI	TGATCA	1 cut(s)	36
BfaI	CTAG	2 cut(s)	600, 1014
BfmI	CTRYAG	3 cut(s)	795, 1140, 1322
BfrI	CTTAAG	1 cut(s)	743
BglII	AGATCT	1 cut(s)	813
BisI	GCNGC	6 cut(s)	442, 627, 941, 1325, 1340, 1362
BlsI	GCNGC	6 cut(s)	443, 628, 942, 1326, 1341, 1363
Bme1390I	CCNGG	2 cut(s)	6, 464
BmeT110I	CYCGRG	1 cut(s)	380
BmgBI	CACGTC	1 cut(s)	566
BmgT120I	GGNCC	3 cut(s)	320, 697, 698
BmiI	GGNNCC	3 cut(s)	699, 1062, 1269
BmrFI	CCNGG	2 cut(s)	6, 464
BmsI	GCATC	2 cut(s)	181, 951
BpiI	GAAGAC	1 cut(s)	906
BpmI	CTGGAG	1 cut(s)	485
Bpu10I	CCTNAGC	1 cut(s)	445
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	1 cut(s)	381
BsaXI	ACNNNNNCTCC	4 cut(s)	441, 471, 980, 1010
Bsc4I	CCNNNNNNNGG	4 cut(s)	130, 387, 1085, 1123
Bse1I	ACTGG	3 cut(s)	187, 228, 774
Bse3DI	GCAATG	1 cut(s)	764
Bse8I	GATNNNNATC	1 cut(s)	237
BseBI	CCWGG	2 cut(s)	6, 464
BseDI	CCNNGG	1 cut(s)	381
BseGI	GGATG	4 cut(s)	153, 172, 709, 1075
BseJI	GATNNNNATC	1 cut(s)	237
BseLI	CCNNNNNNNGG	4 cut(s)	130, 387, 1085, 1123
BseMI	GCAATG	1 cut(s)	764
BseMII	CTCAG	4 cut(s)	104, 261, 459, 840
BseNI	ACTGG	3 cut(s)	187, 228, 774
BseRI	GAGGAG	4 cut(s)	398, 1001, 1139, 1307
BseSI	GKGCMC	2 cut(s)	302, 701
BseXI	GCAGC	6 cut(s)	428, 638, 927, 1336, 1348, 1351
BshFI	GGCC	5 cut(s)	201, 322, 475, 561, 699
BshNI	GGYRCC	1 cut(s)	1060
BsiHKCI	CYCGRG	1 cut(s)	380
BsiSI	CCGG	1 cut(s)	202
BslI	CCNNNNNNNGG	4 cut(s)	130, 387, 1085, 1123
BsmI	GAATGC	2 cut(s)	70, 352
BsnI	GGCC	5 cut(s)	201, 322, 475, 561, 699
BsoBI	CYCGRG	1 cut(s)	380
Bsp120I	GGGCCC	1 cut(s)	697
Bsp1286I	GDGCHC	2 cut(s)	302, 701
Bsp1407I	TGTACA	2 cut(s)	327, 1072
Bsp143I	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
BspACI	CCGC	1 cut(s)	244
BspANI	GGCC	5 cut(s)	201, 322, 475, 561, 699
BspCNI	CTCAG	4 cut(s)	103, 262, 458, 841
BspLI	GGNNCC	3 cut(s)	699, 1062, 1269
BspMAI	CTGCAG	3 cut(s)	799, 1144, 1326
BspPI	GGATC	3 cut(s)	332, 1103, 1127
BspQI	GCTCTTC	2 cut(s)	125, 711
BspT107I	GGYRCC	1 cut(s)	1060
BspTI	CTTAAG	1 cut(s)	743
BsrDI	GCAATG	1 cut(s)	764
BsrGI	TGTACA	2 cut(s)	327, 1072
BsrI	ACTGG	3 cut(s)	187, 228, 774
BssECI	CCNNGG	1 cut(s)	381
BssMI	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
Bst2UI	CCWGG	2 cut(s)	6, 464
Bst4CI	ACNGT	2 cut(s)	674, 1118
Bst6I	CTCTTC	2 cut(s)	125, 711
BstAFI	CTTAAG	1 cut(s)	743
BstAPI	GCANNNNNTGC	2 cut(s)	632, 970
BstAUI	TGTACA	2 cut(s)	327, 1072
BstC8I	GCNNGC	4 cut(s)	170, 181, 473, 1359
BstDEI	CTNAG	5 cut(s)	90, 270, 445, 817, 849
BstF5I	GGATG	4 cut(s)	153, 172, 709, 1075
BstKTI	GATC	6 cut(s)	39, 340, 728, 816, 1111, 1135
BstMBI	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
BstMWI	GCNNNNNNNGC	3 cut(s)	468, 632, 970
BstNI	CCWGG	2 cut(s)	6, 464
BstNSI	RCATGY	1 cut(s)	183
BstSCI	CCNGG	2 cut(s)	4, 462
BstSFI	CTRYAG	3 cut(s)	795, 1140, 1322
BstSLI	GKGCMC	2 cut(s)	302, 701
BstV1I	GCAGC	6 cut(s)	428, 638, 927, 1336, 1348, 1351
BstV2I	GAAGAC	1 cut(s)	906
BstX2I	RGATCY	1 cut(s)	813
BstYI	RGATCY	1 cut(s)	813
BsuRI	GGCC	5 cut(s)	201, 322, 475, 561, 699
BtrI	CACGTC	1 cut(s)	566
BtsCI	GGATG	4 cut(s)	153, 172, 709, 1075
BtsI	GCAGTG	1 cut(s)	507
BtsIMutI	CAGTG	2 cut(s)	221, 507
Cac8I	GCNNGC	4 cut(s)	170, 181, 473, 1359
CaiI	CAGNNNCTG	2 cut(s)	452, 1202
Cfr13I	GGNCC	3 cut(s)	320, 697, 698
Csp6I	GTAC	3 cut(s)	247, 328, 1073
CviAII	CATG	3 cut(s)	31, 180, 1024
CviQI	GTAC	3 cut(s)	247, 328, 1073
DdeI	CTNAG	5 cut(s)	90, 270, 445, 817, 849
DpnI	GATC	6 cut(s)	38, 339, 727, 815, 1110, 1134
DpnII	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
EaeI	YGGCCR	3 cut(s)	199, 473, 559
Eam1104I	CTCTTC	2 cut(s)	125, 711
EarI	CTCTTC	2 cut(s)	125, 711
Eco24I	GRGCYC	1 cut(s)	701
Eco88I	CYCGRG	1 cut(s)	380
EcoO109I	RGGNCCY	1 cut(s)	698
EcoRII	CCWGG	2 cut(s)	4, 462
EcoT38I	GRGCYC	1 cut(s)	701
FaeI	CATG	3 cut(s)	34, 183, 1027
FalI	AAGNNNNNCTT	2 cut(s)	737, 769
FatI	CATG	3 cut(s)	30, 179, 1023
FauNDI	CATATG	2 cut(s)	127, 1041
FbaI	TGATCA	1 cut(s)	36
FblI	GTMKAC	1 cut(s)	651
Fnu4HI	GCNGC	6 cut(s)	442, 627, 941, 1325, 1340, 1362
FokI	GGATG	4 cut(s)	159, 160, 696, 1062
FriOI	GRGCYC	1 cut(s)	701
Fsp4HI	GCNGC	6 cut(s)	442, 627, 941, 1325, 1340, 1362
FspBI	CTAG	2 cut(s)	600, 1014
GluI	GCNGC	6 cut(s)	442, 627, 941, 1325, 1340, 1362
GsuI	CTGGAG	1 cut(s)	485
HaeIII	GGCC	5 cut(s)	201, 322, 475, 561, 699
HapII	CCGG	1 cut(s)	202
Hin1II	CATG	3 cut(s)	34, 183, 1027
HinfI	GANTC	3 cut(s)	826, 836, 1245
HpaII	CCGG	1 cut(s)	202
Hpy166II	GTNNAC	3 cut(s)	328, 652, 1073
Hpy188I	TCNGA	4 cut(s)	271, 418, 850, 1104
Hpy188III	TCNNGA	4 cut(s)	74, 447, 518, 830
Hpy8I	GTNNAC	3 cut(s)	328, 652, 1073
Hpy99I	CGWCG	1 cut(s)	567
HpyAV	CCTTC	2 cut(s)	524, 597
HpyCH4III	ACNGT	2 cut(s)	674, 1118
HpyCH4IV	ACGT	3 cut(s)	565, 1223, 1353
HpyF10VI	GCNNNNNNNGC	3 cut(s)	468, 632, 970
HpyF3I	CTNAG	5 cut(s)	90, 270, 445, 817, 849
HpySE526I	ACGT	3 cut(s)	565, 1223, 1353
Hsp92II	CATG	3 cut(s)	34, 183, 1027
Ksp22I	TGATCA	1 cut(s)	36
Kzo9I	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
LguI	GCTCTTC	2 cut(s)	125, 711
LmnI	GCTCC	3 cut(s)	449, 922, 1267
Lsp1109I	GCAGC	6 cut(s)	428, 638, 927, 1336, 1348, 1351
LweI	GCATC	2 cut(s)	181, 951
MaeI	CTAG	2 cut(s)	600, 1014
MaeII	ACGT	3 cut(s)	565, 1223, 1353
MaeIII	GTNAC	2 cut(s)	841, 1224
MalI	GATC	6 cut(s)	38, 339, 727, 815, 1110, 1134
MboI	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
MboII	GAAGA	6 cut(s)	112, 698, 911, 970, 1181, 1240
MfeI	CAATTG	1 cut(s)	486
MflI	RGATCY	1 cut(s)	813
MhlI	GDGCHC	2 cut(s)	302, 701
MlsI	TGGCCA	1 cut(s)	475
MluCI	AATT	3 cut(s)	102, 280, 486
MluNI	TGGCCA	1 cut(s)	475
MmeI	TCCRAC	1 cut(s)	1172
Mox20I	TGGCCA	1 cut(s)	475
MscI	TGGCCA	1 cut(s)	475
MseI	TTAA	8 cut(s)	84, 141, 258, 744, 906, 1055, 1176, 1241
MslI	CAYNNNNRTG	1 cut(s)	357
Msp20I	TGGCCA	1 cut(s)	475
MspCI	CTTAAG	1 cut(s)	743
MspI	CCGG	1 cut(s)	202
MspR9I	CCNGG	2 cut(s)	6, 464
MunI	CAATTG	1 cut(s)	486
Mva1269I	GAATGC	2 cut(s)	70, 352
MvaI	CCWGG	2 cut(s)	6, 464
MwoI	GCNNNNNNNGC	3 cut(s)	468, 632, 970
NdeI	CATATG	2 cut(s)	127, 1041
NdeII	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
NlaIII	CATG	3 cut(s)	34, 183, 1027
NlaIV	GGNNCC	3 cut(s)	699, 1062, 1269
NmuCI	GTSAC	2 cut(s)	841, 1224
NspI	RCATGY	1 cut(s)	183
PaeI	GCATGC	1 cut(s)	183
PciSI	GCTCTTC	2 cut(s)	125, 711
PctI	GAATGC	2 cut(s)	70, 352
PfeI	GAWTC	3 cut(s)	826, 836, 1245
PkrI	GCNGC	6 cut(s)	443, 628, 942, 1326, 1341, 1363
PshBI	ATTAAT	1 cut(s)	906
Psp6I	CCWGG	2 cut(s)	4, 462
PspGI	CCWGG	2 cut(s)	4, 462
PspN4I	GGNNCC	3 cut(s)	699, 1062, 1269
PspOMI	GGGCCC	1 cut(s)	697
PspPI	GGNCC	3 cut(s)	320, 697, 698
PstI	CTGCAG	3 cut(s)	799, 1144, 1326
PstNI	CAGNNNCTG	2 cut(s)	452, 1202
PsuI	RGATCY	1 cut(s)	813
RsaI	GTAC	3 cut(s)	248, 329, 1074
RsaNI	GTAC	3 cut(s)	247, 328, 1073
RseI	CAYNNNNRTG	1 cut(s)	357
SapI	GCTCTTC	2 cut(s)	125, 711
SaqAI	TTAA	8 cut(s)	84, 141, 258, 744, 906, 1055, 1176, 1241
SatI	GCNGC	6 cut(s)	442, 627, 941, 1325, 1340, 1362
Sau3AI	GATC	6 cut(s)	36, 337, 725, 813, 1108, 1132
Sau96I	GGNCC	3 cut(s)	320, 697, 698
ScrFI	CCNGG	2 cut(s)	6, 464
SduI	GDGCHC	2 cut(s)	302, 701
SfaNI	GCATC	2 cut(s)	181, 951
SfcI	CTRYAG	3 cut(s)	795, 1140, 1322
SmiMI	CAYNNNNRTG	1 cut(s)	357
SmlI	CTYRAG	1 cut(s)	743
SmoI	CTYRAG	1 cut(s)	743
SphI	GCATGC	1 cut(s)	183
Sse9I	AATT	3 cut(s)	102, 280, 486
SsiI	CCGC	1 cut(s)	244
SspMI	CTAG	2 cut(s)	600, 1014
StyD4I	CCNGG	2 cut(s)	4, 462
TaaI	ACNGT	2 cut(s)	674, 1118
TaiI	ACGT	3 cut(s)	568, 1226, 1356
TaqI	TCGA	2 cut(s)	517, 1331
TasI	AATT	3 cut(s)	102, 280, 486
TatI	WGTACW	2 cut(s)	327, 1072
TfiI	GAWTC	3 cut(s)	826, 836, 1245
Tru1I	TTAA	8 cut(s)	84, 141, 258, 744, 906, 1055, 1176, 1241
Tru9I	TTAA	8 cut(s)	84, 141, 258, 744, 906, 1055, 1176, 1241
TscAI	CASTG	2 cut(s)	228, 514
TseFI	GTSAC	2 cut(s)	841, 1224
TseI	GCWGC	6 cut(s)	441, 626, 940, 1324, 1339, 1361
Tsp45I	GTSAC	2 cut(s)	841, 1224
TspDTI	ATGAA	8 cut(s)	63, 563, 630, 698, 822, 849, 944, 1058
TspGWI	ACGGA	1 cut(s)	253
TspRI	CASTG	2 cut(s)	228, 514
Vha464I	CTTAAG	1 cut(s)	743
VspI	ATTAAT	1 cut(s)	906
XapI	RAATTY	2 cut(s)	102, 280
XceI	RCATGY	1 cut(s)	183
XcmI	CCANNNNNNNNNTGG	1 cut(s)	194
XmiI	GTMKAC	1 cut(s)	651
XspI	CTAG	2 cut(s)	600, 1014

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