Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0005779

Physical Location & Seq

Genomic Coordinates Forward (+)

4042078 .. 4045906

Gene Structure 3829 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G002490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1200 bp

ATGCCTGGACACGAAGTTGCCAACGATGACATGATGATCGATGAGTATGAACAGAAGCAAGTGAATGCTGTTCCTGATGGATTTAACTCTCAGTATCTCAAAATTTACTATGGAAAGCTCTTCCCATATGAGGAAATGTTTAAGTGGATGTCCTATGCAAATGGTAAGTCGCATTCTCTATCAACCCATTTCCTAACATTCCTTTCTTTTTGTCTTGAAAATTCTATCAAAGAGAAGTGCCCCGTCAAAATAGATATTGGGCCTGTGTACAATGTTGATCCTGCAAAGAGGCATTCCTATGCTCAAAGTGGTTGCTACCCCGAGGAGAGGGAACTGATTTTTGATATAGATATGTCAGATTACGATGATGTTAGATACTGCTGCTCAGGAGCTGATGTGTGCCTGGAGTGCTGGCCGCTTATGACAATTGCTATTAAAGTGATTGACACTGCCCTTCGAGACACTTATATGTTATACAATTTTGTGAAAGGCAGTGAAAACAGTCATAAAAAGGTTTCTTTGATGGGCCCTGCTCTTCATCAATTCGTTGTGAGATCATATACCGAAGTTCTTAAGGATTTCTTTGAGAGGACATTGCTTTCCAGTCAAAAGATATTTTCTACTGCAGAGAGATATGAAAAGATCTTAGATATGATTCCTGATGAATCTGTCACTTCTGAGCTTCGGGGAAAGTGGCAAGATAATAGACGAACCTCCAATGCAAAAGAAGACATTAATGTTGCTCATTGGGAGCAGCTGAAACATATGCTGCAATCTGGGAAACAGAAGATGCAAGGACTGCGTAGATGTGTGGAGGAGATTGTGTTCTCTTATACCTACCCTAGACTTGACATGGAGGTTTCAAAACATATGAACCATTTATTAAAGGCACCATTCTGTGTACATCCAAAGACAGGTCGTATTTGTGTTCCGATTGATCCCAACCGTTGTGAGGAGTTTGATCCTACTGCAGTTCCAACCCTTTCCACTCTTATTGAAGAACTTAATAATGGGGGTTTGAGAGCAGAGGCTGATAACGAACGGGATAGAACGTCACTTGGAAAATCAATAAGATTCTTCCAATCATCATTTTTGGAGCCTTTGGTAAAATCTTGCAAGGAGGAGATGATAAGTTCCTACAATGCGAAACTGCAGCAGTCGAAGTTGCAGCAGTCAAAGAACGTGCTTGCTGCAATCTAG

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

399

Amino Acids

46.07

Weight (kDa)

5.94

Isoelectric Point (pI)

46.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	114 - 155	1e-08	DNA primase small subunit
DNA_primase_S	PF01896	177 - 313	8.3e-16	DNA primase small subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	889
AciI	CCGC	1 cut(s)	416
AclWI	GGATC	3 cut(s)	272, 932, 956
AcoI	YGGCCR	1 cut(s)	413
AcsI	RAATTY	2 cut(s)	102, 220
AfaI	GTAC	2 cut(s)	269, 903
AfiI	CCNNNNNNNGG	4 cut(s)	130, 327, 914, 952
AflII	CTTAAG	1 cut(s)	572
AgsI	TTSAA	3 cut(s)	218, 864, 998
AjnI	CCWGG	2 cut(s)	4, 402
AloI	GAACNNNNNNTCC	2 cut(s)	809, 841
AluBI	AGCT	4 cut(s)	118, 392, 682, 757
AluI	AGCT	4 cut(s)	118, 392, 682, 757
Alw26I	GTCTC	1 cut(s)	453
AlwI	GGATC	3 cut(s)	272, 932, 956
AlwNI	CAGNNNCTG	2 cut(s)	392, 1031
Ama87I	CYCGRG	1 cut(s)	320
AoxI	GGCC	3 cut(s)	260, 413, 526
ApaI	GGGCCC	1 cut(s)	530
ApeKI	GCWGC	6 cut(s)	381, 754, 769, 1153, 1168, 1190
ApoI	RAATTY	2 cut(s)	102, 220
ArsI	GACNNNNNNTTYG	2 cut(s)	152, 184
AseI	ATTAAT	1 cut(s)	735
AspS9I	GGNCC	3 cut(s)	260, 526, 527
AvaI	CYCGRG	1 cut(s)	320
BaeGI	GKGCMC	2 cut(s)	242, 530
BanI	GGYRCC	1 cut(s)	889
BanII	GRGCYC	1 cut(s)	530
BbsI	GAAGAC	1 cut(s)	735
BbvI	GCAGC	6 cut(s)	368, 756, 766, 1165, 1177, 1180
BccI	CCATC	2 cut(s)	71, 517
BciT130I	CCWGG	2 cut(s)	6, 404
BcoDI	GTCTC	1 cut(s)	453
BfaI	CTAG	2 cut(s)	843, 1198
BfmI	CTRYAG	3 cut(s)	624, 969, 1151
BfrI	CTTAAG	1 cut(s)	572
BglII	AGATCT	1 cut(s)	642
BisI	GCNGC	7 cut(s)	382, 416, 755, 770, 1154, 1169, 1191
BlsI	GCNGC	7 cut(s)	383, 417, 756, 771, 1155, 1170, 1192
Bme1390I	CCNGG	2 cut(s)	6, 404
BmeT110I	CYCGRG	1 cut(s)	320
BmgT120I	GGNCC	3 cut(s)	260, 526, 527
BmiI	GGNNCC	3 cut(s)	528, 891, 1098
BmrFI	CCNGG	2 cut(s)	6, 404
BmsI	GCATC	1 cut(s)	780
BpiI	GAAGAC	1 cut(s)	735
BpmI	CTGGAG	1 cut(s)	425
Bpu10I	CCTNAGC	1 cut(s)	385
Bsa29I	ATCGAT	1 cut(s)	39
BsaJI	CCNNGG	1 cut(s)	321
BsaXI	ACNNNNNCTCC	4 cut(s)	381, 411, 809, 839
Bsc4I	CCNNNNNNNGG	4 cut(s)	130, 327, 914, 952
Bse1I	ACTGG	1 cut(s)	603
Bse3DI	GCAATG	1 cut(s)	593
BseBI	CCWGG	2 cut(s)	6, 404
BseCI	ATCGAT	1 cut(s)	39
BseDI	CCNNGG	1 cut(s)	321
BseGI	GGATG	2 cut(s)	153, 904
BseLI	CCNNNNNNNGG	4 cut(s)	130, 327, 914, 952
BseMI	GCAATG	1 cut(s)	593
BseMII	CTCAG	3 cut(s)	104, 399, 669
BseNI	ACTGG	1 cut(s)	603
BseRI	GAGGAG	4 cut(s)	338, 830, 968, 1136
BseSI	GKGCMC	2 cut(s)	242, 530
BseXI	GCAGC	6 cut(s)	368, 756, 766, 1165, 1177, 1180
BshFI	GGCC	3 cut(s)	262, 415, 528
BshNI	GGYRCC	1 cut(s)	889
BshVI	ATCGAT	1 cut(s)	39
BsiHKCI	CYCGRG	1 cut(s)	320
BslI	CCNNNNNNNGG	4 cut(s)	130, 327, 914, 952
BsmAI	GTCTC	1 cut(s)	453
BsmI	GAATGC	3 cut(s)	70, 172, 292
BsnI	GGCC	3 cut(s)	262, 415, 528
BsoBI	CYCGRG	1 cut(s)	320
Bsp120I	GGGCCC	1 cut(s)	526
Bsp1286I	GDGCHC	2 cut(s)	242, 530
Bsp1407I	TGTACA	2 cut(s)	267, 901
Bsp143I	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
BspACI	CCGC	1 cut(s)	416
BspANI	GGCC	3 cut(s)	262, 415, 528
BspCNI	CTCAG	3 cut(s)	103, 398, 670
BspDI	ATCGAT	1 cut(s)	39
BspLI	GGNNCC	3 cut(s)	528, 891, 1098
BspMAI	CTGCAG	3 cut(s)	628, 973, 1155
BspPI	GGATC	3 cut(s)	272, 932, 956
BspQI	GCTCTTC	2 cut(s)	125, 540
BspT107I	GGYRCC	1 cut(s)	889
BspTI	CTTAAG	1 cut(s)	572
BsrDI	GCAATG	1 cut(s)	593
BsrGI	TGTACA	2 cut(s)	267, 901
BsrI	ACTGG	1 cut(s)	603
BssECI	CCNNGG	1 cut(s)	321
BssMI	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
Bst2UI	CCWGG	2 cut(s)	6, 404
Bst4CI	ACNGT	2 cut(s)	503, 947
Bst6I	CTCTTC	2 cut(s)	125, 540
BstAFI	CTTAAG	1 cut(s)	572
BstAPI	GCANNNNNTGC	1 cut(s)	799
BstAUI	TGTACA	2 cut(s)	267, 901
BstC8I	GCNNGC	2 cut(s)	413, 1188
BstDEI	CTNAG	4 cut(s)	90, 385, 646, 678
BstF5I	GGATG	2 cut(s)	153, 904
BstKTI	GATC	6 cut(s)	39, 280, 557, 645, 940, 964
BstMAI	GTCTC	1 cut(s)	453
BstMBI	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
BstMWI	GCNNNNNNNGC	2 cut(s)	408, 799
BstNI	CCWGG	2 cut(s)	6, 404
BstSCI	CCNGG	2 cut(s)	4, 402
BstSFI	CTRYAG	3 cut(s)	624, 969, 1151
BstSLI	GKGCMC	2 cut(s)	242, 530
BstV1I	GCAGC	6 cut(s)	368, 756, 766, 1165, 1177, 1180
BstV2I	GAAGAC	1 cut(s)	735
BstX2I	RGATCY	1 cut(s)	642
BstYI	RGATCY	1 cut(s)	642
Bsu15I	ATCGAT	1 cut(s)	39
BsuRI	GGCC	3 cut(s)	262, 415, 528
BsuTUI	ATCGAT	1 cut(s)	39
BtsCI	GGATG	2 cut(s)	153, 904
BtsI	GCAGTG	2 cut(s)	447, 499
BtsIMutI	CAGTG	2 cut(s)	447, 499
Cac8I	GCNNGC	2 cut(s)	413, 1188
CaiI	CAGNNNCTG	2 cut(s)	392, 1031
Cfr13I	GGNCC	3 cut(s)	260, 526, 527
ClaI	ATCGAT	1 cut(s)	39
Csp6I	GTAC	2 cut(s)	268, 902
CspCI	CAANNNNNGTGG	2 cut(s)	976, 1011
CviAII	CATG	2 cut(s)	31, 853
CviJI	RGCY	9 cut(s)	118, 262, 392, 415, 528, 682, 757, 1031, 1099
CviKI_1	RGCY	9 cut(s)	118, 262, 392, 415, 528, 682, 757, 1031, 1099
CviQI	GTAC	2 cut(s)	268, 902
DdeI	CTNAG	4 cut(s)	90, 385, 646, 678
DpnI	GATC	6 cut(s)	38, 279, 556, 644, 939, 963
DpnII	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
EaeI	YGGCCR	1 cut(s)	413
Eam1104I	CTCTTC	2 cut(s)	125, 540
EarI	CTCTTC	2 cut(s)	125, 540
Eco24I	GRGCYC	1 cut(s)	530
Eco88I	CYCGRG	1 cut(s)	320
EcoO109I	RGGNCCY	1 cut(s)	527
EcoRII	CCWGG	2 cut(s)	4, 402
EcoT38I	GRGCYC	1 cut(s)	530
FaeI	CATG	2 cut(s)	34, 856
FalI	AAGNNNNNCTT	2 cut(s)	566, 598
FatI	CATG	2 cut(s)	30, 852
FauNDI	CATATG	3 cut(s)	127, 765, 870
Fnu4HI	GCNGC	7 cut(s)	382, 416, 755, 770, 1154, 1169, 1191
FokI	GGATG	2 cut(s)	160, 891
FriOI	GRGCYC	1 cut(s)	530
Fsp4HI	GCNGC	7 cut(s)	382, 416, 755, 770, 1154, 1169, 1191
FspBI	CTAG	2 cut(s)	843, 1198
GluI	GCNGC	7 cut(s)	382, 416, 755, 770, 1154, 1169, 1191
GsuI	CTGGAG	1 cut(s)	425
HaeIII	GGCC	3 cut(s)	262, 415, 528
Hin1II	CATG	2 cut(s)	34, 856
HinfI	GANTC	3 cut(s)	655, 665, 1074
Hpy166II	GTNNAC	2 cut(s)	268, 902
Hpy188I	TCNGA	3 cut(s)	358, 679, 933
Hpy188III	TCNNGA	5 cut(s)	74, 215, 387, 458, 659
Hpy8I	GTNNAC	2 cut(s)	268, 902
HpyAV	CCTTC	1 cut(s)	464
HpyCH4III	ACNGT	2 cut(s)	503, 947
HpyCH4IV	ACGT	2 cut(s)	1052, 1182
HpyF10VI	GCNNNNNNNGC	2 cut(s)	408, 799
HpyF3I	CTNAG	4 cut(s)	90, 385, 646, 678
HpySE526I	ACGT	2 cut(s)	1052, 1182
Hsp92II	CATG	2 cut(s)	34, 856
Kzo9I	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
LguI	GCTCTTC	2 cut(s)	125, 540
LmnI	GCTCC	3 cut(s)	389, 751, 1096
Lsp1109I	GCAGC	6 cut(s)	368, 756, 766, 1165, 1177, 1180
LweI	GCATC	1 cut(s)	780
MaeI	CTAG	2 cut(s)	843, 1198
MaeII	ACGT	2 cut(s)	1052, 1182
MaeIII	GTNAC	2 cut(s)	670, 1053
MalI	GATC	6 cut(s)	38, 279, 556, 644, 939, 963
MboI	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
MboII	GAAGA	6 cut(s)	112, 527, 740, 799, 1010, 1069
MfeI	CAATTG	1 cut(s)	426
MflI	RGATCY	1 cut(s)	642
MhlI	GDGCHC	2 cut(s)	242, 530
MluCI	AATT	5 cut(s)	102, 220, 426, 478, 542
MmeI	TCCRAC	1 cut(s)	1001
MseI	TTAA	7 cut(s)	84, 141, 435, 573, 735, 884, 1005
MslI	CAYNNNNRTG	2 cut(s)	297, 467
MspA1I	CMGCKG	1 cut(s)	757
MspCI	CTTAAG	1 cut(s)	572
MspR9I	CCNGG	2 cut(s)	6, 404
MunI	CAATTG	1 cut(s)	426
Mva1269I	GAATGC	3 cut(s)	70, 172, 292
MvaI	CCWGG	2 cut(s)	6, 404
MwoI	GCNNNNNNNGC	2 cut(s)	408, 799
NdeI	CATATG	3 cut(s)	127, 765, 870
NdeII	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
NlaIII	CATG	2 cut(s)	34, 856
NlaIV	GGNNCC	3 cut(s)	528, 891, 1098
NmuCI	GTSAC	2 cut(s)	670, 1053
PciSI	GCTCTTC	2 cut(s)	125, 540
PctI	GAATGC	3 cut(s)	70, 172, 292
PfeI	GAWTC	3 cut(s)	655, 665, 1074
PkrI	GCNGC	7 cut(s)	383, 417, 756, 771, 1155, 1170, 1192
PshBI	ATTAAT	1 cut(s)	735
Psp6I	CCWGG	2 cut(s)	4, 402
PspGI	CCWGG	2 cut(s)	4, 402
PspN4I	GGNNCC	3 cut(s)	528, 891, 1098
PspOMI	GGGCCC	1 cut(s)	526
PspPI	GGNCC	3 cut(s)	260, 526, 527
PstI	CTGCAG	3 cut(s)	628, 973, 1155
PstNI	CAGNNNCTG	2 cut(s)	392, 1031
PsuI	RGATCY	1 cut(s)	642
PvuII	CAGCTG	1 cut(s)	757
RsaI	GTAC	2 cut(s)	269, 903
RsaNI	GTAC	2 cut(s)	268, 902
RseI	CAYNNNNRTG	2 cut(s)	297, 467
SapI	GCTCTTC	2 cut(s)	125, 540
SaqAI	TTAA	7 cut(s)	84, 141, 435, 573, 735, 884, 1005
SatI	GCNGC	7 cut(s)	382, 416, 755, 770, 1154, 1169, 1191
Sau3AI	GATC	6 cut(s)	36, 277, 554, 642, 937, 961
Sau96I	GGNCC	3 cut(s)	260, 526, 527
ScrFI	CCNGG	2 cut(s)	6, 404
SduI	GDGCHC	2 cut(s)	242, 530
SfaNI	GCATC	1 cut(s)	780
SfcI	CTRYAG	3 cut(s)	624, 969, 1151
SmiMI	CAYNNNNRTG	2 cut(s)	297, 467
SmlI	CTYRAG	1 cut(s)	572
SmoI	CTYRAG	1 cut(s)	572
Sse9I	AATT	5 cut(s)	102, 220, 426, 478, 542
SsiI	CCGC	1 cut(s)	416
SspMI	CTAG	2 cut(s)	843, 1198
StyD4I	CCNGG	2 cut(s)	4, 402
TaaI	ACNGT	2 cut(s)	503, 947
TaiI	ACGT	2 cut(s)	1055, 1185
TaqI	TCGA	3 cut(s)	39, 457, 1160
TasI	AATT	5 cut(s)	102, 220, 426, 478, 542
TatI	WGTACW	2 cut(s)	267, 901
TauI	GCSGC	1 cut(s)	418
TfiI	GAWTC	3 cut(s)	655, 665, 1074
Tru1I	TTAA	7 cut(s)	84, 141, 435, 573, 735, 884, 1005
Tru9I	TTAA	7 cut(s)	84, 141, 435, 573, 735, 884, 1005
TscAI	CASTG	2 cut(s)	454, 499
TseFI	GTSAC	2 cut(s)	670, 1053
TseI	GCWGC	6 cut(s)	381, 754, 769, 1153, 1168, 1190
Tsp45I	GTSAC	2 cut(s)	670, 1053
TspDTI	ATGAA	5 cut(s)	63, 527, 651, 678, 887
TspRI	CASTG	2 cut(s)	454, 499
Vha464I	CTTAAG	1 cut(s)	572
VspI	ATTAAT	1 cut(s)	735
XapI	RAATTY	2 cut(s)	102, 220
XspI	CTAG	2 cut(s)	843, 1198

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