Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005779

Physical Location & Seq

Genomic Coordinates Forward (+)

2156995 .. 2160393

Gene Structure 3399 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG024100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1233 bp

ATGCCTGGACACGAAGTTGCCAACGATGACATGATGATCGATGAGTATGAACAGAAGCAAGTGAATGCTGTTCCTGATGGATTTAACTCTCAGTATCTCAAAATTTACTATGGAAAGCTCTTCCCATATGAGGAAATGTTTAAGTGGATGTCCTATGCAAATGATGGCAAGCATCCTGCACGCAACCAGTCCTACTTTGGCCGGAGAGAGTTTTCTTTCACACTGGATAATGATGTTTATCTGCGGTACAAAACTTTCAACTCCGTGTCTGAGCTTGAAAATTCTATCAAAGAGAAGTGCCCCGTCAAAATAGATATTGGGCCTGTGTATGTTGATCCTGCAAAGAGGCATTCCTATGCTCAAAGTGGTTGCTACCCCGAGGAGAGGGAACTGATTTTTGATATAGATATGTCAGATTACGATGATGTTAGATACTGCTGCGCAGGAGCTGATGTGTGCCTGGAGTGCTGGCCGCTTATGACAATTGCTATCAAAGTGATTGACACTGCCCTTCGAGATGACTTTGGTTTCAATCACATTCTCTGGGTATACAGTGGCCGACGTGGTGTTCATTGTTGGGTTTGTGATGGGAAAGCTAGAAGGCTCACAAATGAACTGAGAGCAGCTATTGCTGACTATTTTCGTGTCTACAAGGGCAATGAAAACAGTCATAAAAAGGTTTCTTTGATGGGCCCTGCTCTTCATCCATTCCTTGTGAGATCATATACTGAAGTTCTTAAGGATTTCTTTGAGAGGACATTGCTTTCCAGTCAAAAGATATTTTCTACTGCAGAGAGATATGAAAAGATCTTAGATATGATTCCTGATGAATCTGTCACTTCTGAGCTTCGGGGAAAGTGGCAAGATAATAGACGAACCTCCAATGCAAAAGAAGACATTAATGTTGCTCGTTGGGAGCAGCTGAAACATATGCTGCAATCTGGGAAACAGAAGATGCAAGGACTGCGTAGATGTGTGGAGGAGATTGTGTTCTCTTATACCTACCCTAGACTTGACATGGAGCTTATTGAAGAACTTAATAATGAGGGTTTGAGAGCAGAGGCTGATAACGAACGGGATAGAACGTCACTTGGAAAATCAATAAGATTCTTCCAATCATCATTTTTGGAGCCTTTGGTAAAATCTTGCAAGGAGGAGATGATAAGTTCCTACAATGCGAAACTGCAGCAGTCGAAGTTGCAGCAGTCAAAGAACGTGCTTGCTGCAATCTAG

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

410

Amino Acids

47.87

Weight (kDa)

6.01

Isoelectric Point (pI)

53.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	133 - 342	1.9e-39	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)
Acc16I	TGCGCA	1 cut(s)	442
AccI	GTMKAC	2 cut(s)	549, 648
AciI	CCGC	2 cut(s)	244, 473
AclWI	GGATC	1 cut(s)	329
AcoI	YGGCCR	3 cut(s)	199, 470, 556
AcsI	RAATTY	2 cut(s)	102, 280
AcuI	CTGAAG	1 cut(s)	750
AfaI	GTAC	1 cut(s)	248
AfiI	CCNNNNNNNGG	2 cut(s)	130, 384
AflII	CTTAAG	1 cut(s)	737
AgsI	TTSAA	4 cut(s)	259, 278, 532, 1031
AjiI	CACGTC	1 cut(s)	563
AjnI	CCWGG	2 cut(s)	4, 459
AloI	GAACNNNNNNTCC	2 cut(s)	974, 1006
AluBI	AGCT	8 cut(s)	118, 274, 449, 596, 626, 847, 922, 1024
AluI	AGCT	8 cut(s)	118, 274, 449, 596, 626, 847, 922, 1024
AlwI	GGATC	1 cut(s)	329
AlwNI	CAGNNNCTG	2 cut(s)	449, 1064
Ama87I	CYCGRG	1 cut(s)	377
AoxI	GGCC	5 cut(s)	199, 320, 470, 556, 691
ApaI	GGGCCC	1 cut(s)	695
ApeKI	GCWGC	7 cut(s)	438, 623, 919, 934, 1186, 1201, 1223
ApoI	RAATTY	2 cut(s)	102, 280
AseI	ATTAAT	1 cut(s)	900
AspLEI	GCGC	1 cut(s)	443
AspS9I	GGNCC	3 cut(s)	320, 691, 692
AvaI	CYCGRG	1 cut(s)	377
BaeGI	GKGCMC	2 cut(s)	302, 695
BanII	GRGCYC	1 cut(s)	695
BbsI	GAAGAC	1 cut(s)	900
BbvI	GCAGC	7 cut(s)	425, 635, 921, 931, 1198, 1210, 1213
BccI	CCATC	4 cut(s)	71, 158, 581, 682
BciT130I	CCWGG	2 cut(s)	6, 461
BfaI	CTAG	3 cut(s)	597, 1008, 1231
BfmI	CTRYAG	2 cut(s)	789, 1184
BfrI	CTTAAG	1 cut(s)	737
BglII	AGATCT	1 cut(s)	807
BisI	GCNGC	8 cut(s)	439, 473, 624, 920, 935, 1187, 1202, 1224
BlsI	GCNGC	8 cut(s)	440, 474, 625, 921, 936, 1188, 1203, 1225
Bme1390I	CCNGG	2 cut(s)	6, 461
BmeT110I	CYCGRG	1 cut(s)	377
BmgBI	CACGTC	1 cut(s)	563
BmgT120I	GGNCC	3 cut(s)	320, 691, 692
BmiI	GGNNCC	2 cut(s)	693, 1131
BmrFI	CCNGG	2 cut(s)	6, 461
BmsI	GCATC	2 cut(s)	181, 945
BpiI	GAAGAC	1 cut(s)	900
BpmI	CTGGAG	1 cut(s)	482
Bsa29I	ATCGAT	1 cut(s)	39
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	1 cut(s)	378
BsaXI	ACNNNNNCTCC	4 cut(s)	438, 468, 974, 1004
Bsc4I	CCNNNNNNNGG	2 cut(s)	130, 384
Bse1I	ACTGG	3 cut(s)	187, 228, 768
Bse3DI	GCAATG	2 cut(s)	664, 758
Bse8I	GATNNNNATC	1 cut(s)	237
BseBI	CCWGG	2 cut(s)	6, 461
BseCI	ATCGAT	1 cut(s)	39
BseDI	CCNNGG	1 cut(s)	378
BseGI	GGATG	3 cut(s)	153, 172, 703
BseJI	GATNNNNATC	1 cut(s)	237
BseLI	CCNNNNNNNGG	2 cut(s)	130, 384
BseMI	GCAATG	2 cut(s)	664, 758
BseMII	CTCAG	4 cut(s)	104, 261, 608, 834
BseNI	ACTGG	3 cut(s)	187, 228, 768
BseRI	GAGGAG	3 cut(s)	395, 995, 1169
BseSI	GKGCMC	2 cut(s)	302, 695
BseXI	GCAGC	7 cut(s)	425, 635, 921, 931, 1198, 1210, 1213
BsgI	GTGCAG	1 cut(s)	162
BshFI	GGCC	5 cut(s)	201, 322, 472, 558, 693
BshVI	ATCGAT	1 cut(s)	39
BsiHKCI	CYCGRG	1 cut(s)	377
BsiSI	CCGG	1 cut(s)	202
BslI	CCNNNNNNNGG	2 cut(s)	130, 384
BsmI	GAATGC	2 cut(s)	70, 349
BsnI	GGCC	5 cut(s)	201, 322, 472, 558, 693
BsoBI	CYCGRG	1 cut(s)	377
Bsp120I	GGGCCC	1 cut(s)	691
Bsp1286I	GDGCHC	2 cut(s)	302, 695
Bsp143I	GATC	4 cut(s)	36, 334, 719, 807
BspACI	CCGC	2 cut(s)	244, 473
BspANI	GGCC	5 cut(s)	201, 322, 472, 558, 693
BspCNI	CTCAG	4 cut(s)	103, 262, 609, 835
BspDI	ATCGAT	1 cut(s)	39
BspLI	GGNNCC	2 cut(s)	693, 1131
BspMAI	CTGCAG	2 cut(s)	793, 1188
BspPI	GGATC	1 cut(s)	329
BspQI	GCTCTTC	2 cut(s)	125, 705
BspTI	CTTAAG	1 cut(s)	737
BsrDI	GCAATG	2 cut(s)	664, 758
BsrI	ACTGG	3 cut(s)	187, 228, 768
BssECI	CCNNGG	1 cut(s)	378
BssMI	GATC	4 cut(s)	36, 334, 719, 807
BssNAI	GTATAC	1 cut(s)	550
Bst1107I	GTATAC	1 cut(s)	550
Bst2UI	CCWGG	2 cut(s)	6, 461
Bst4CI	ACNGT	2 cut(s)	554, 668
Bst6I	CTCTTC	2 cut(s)	125, 705
BstAFI	CTTAAG	1 cut(s)	737
BstAPI	GCANNNNNTGC	2 cut(s)	629, 964
BstC8I	GCNNGC	4 cut(s)	170, 181, 470, 1221
BstDEI	CTNAG	5 cut(s)	90, 270, 617, 811, 843
BstF5I	GGATG	3 cut(s)	153, 172, 703
BstHHI	GCGC	1 cut(s)	443
BstKTI	GATC	4 cut(s)	39, 337, 722, 810
BstMBI	GATC	4 cut(s)	36, 334, 719, 807
BstMWI	GCNNNNNNNGC	3 cut(s)	465, 629, 964
BstNI	CCWGG	2 cut(s)	6, 461
BstSCI	CCNGG	2 cut(s)	4, 459
BstSFI	CTRYAG	2 cut(s)	789, 1184
BstSLI	GKGCMC	2 cut(s)	302, 695
BstV1I	GCAGC	7 cut(s)	425, 635, 921, 931, 1198, 1210, 1213
BstV2I	GAAGAC	1 cut(s)	900
BstX2I	RGATCY	1 cut(s)	807
BstYI	RGATCY	1 cut(s)	807
BstZ17I	GTATAC	1 cut(s)	550
Bsu15I	ATCGAT	1 cut(s)	39
BsuRI	GGCC	5 cut(s)	201, 322, 472, 558, 693
BsuTUI	ATCGAT	1 cut(s)	39
BtrI	CACGTC	1 cut(s)	563
BtsCI	GGATG	3 cut(s)	153, 172, 703
BtsI	GCAGTG	1 cut(s)	504
BtsIMutI	CAGTG	3 cut(s)	221, 504, 559
Cac8I	GCNNGC	4 cut(s)	170, 181, 470, 1221
CaiI	CAGNNNCTG	2 cut(s)	449, 1064
CfoI	GCGC	1 cut(s)	443
Cfr13I	GGNCC	3 cut(s)	320, 691, 692
ClaI	ATCGAT	1 cut(s)	39
Csp6I	GTAC	1 cut(s)	247
CviAII	CATG	2 cut(s)	31, 1018
CviQI	GTAC	1 cut(s)	247
DdeI	CTNAG	5 cut(s)	90, 270, 617, 811, 843
DpnI	GATC	4 cut(s)	38, 336, 721, 809
DpnII	GATC	4 cut(s)	36, 334, 719, 807
EaeI	YGGCCR	3 cut(s)	199, 470, 556
Eam1104I	CTCTTC	2 cut(s)	125, 705
EarI	CTCTTC	2 cut(s)	125, 705
Eco24I	GRGCYC	1 cut(s)	695
Eco57I	CTGAAG	1 cut(s)	750
Eco88I	CYCGRG	1 cut(s)	377
EcoO109I	RGGNCCY	1 cut(s)	692
EcoRII	CCWGG	2 cut(s)	4, 459
EcoT38I	GRGCYC	1 cut(s)	695
FaeI	CATG	2 cut(s)	34, 1021
FalI	AAGNNNNNCTT	2 cut(s)	731, 763
FatI	CATG	2 cut(s)	30, 1017
FauNDI	CATATG	2 cut(s)	127, 930
FblI	GTMKAC	2 cut(s)	549, 648
Fnu4HI	GCNGC	8 cut(s)	439, 473, 624, 920, 935, 1187, 1202, 1224
FokI	GGATG	3 cut(s)	159, 160, 690
FriOI	GRGCYC	1 cut(s)	695
Fsp4HI	GCNGC	8 cut(s)	439, 473, 624, 920, 935, 1187, 1202, 1224
FspBI	CTAG	3 cut(s)	597, 1008, 1231
FspI	TGCGCA	1 cut(s)	442
GlaI	GCGC	1 cut(s)	442
GluI	GCNGC	8 cut(s)	439, 473, 624, 920, 935, 1187, 1202, 1224
GsuI	CTGGAG	1 cut(s)	482
HaeIII	GGCC	5 cut(s)	201, 322, 472, 558, 693
HapII	CCGG	1 cut(s)	202
HhaI	GCGC	1 cut(s)	443
Hin1II	CATG	2 cut(s)	34, 1021
Hin6I	GCGC	1 cut(s)	441
HinP1I	GCGC	1 cut(s)	441
HinfI	GANTC	3 cut(s)	820, 830, 1107
HpaII	CCGG	1 cut(s)	202
Hpy166II	GTNNAC	2 cut(s)	550, 649
Hpy188I	TCNGA	3 cut(s)	271, 415, 844
Hpy188III	TCNNGA	3 cut(s)	74, 515, 824
Hpy8I	GTNNAC	2 cut(s)	550, 649
Hpy99I	CGWCG	1 cut(s)	564
HpyAV	CCTTC	2 cut(s)	521, 594
HpyCH4III	ACNGT	2 cut(s)	554, 668
HpyCH4IV	ACGT	3 cut(s)	562, 1085, 1215
HpyF10VI	GCNNNNNNNGC	3 cut(s)	465, 629, 964
HpyF3I	CTNAG	5 cut(s)	90, 270, 617, 811, 843
HpySE526I	ACGT	3 cut(s)	562, 1085, 1215
Hsp92II	CATG	2 cut(s)	34, 1021
HspAI	GCGC	1 cut(s)	441
Kzo9I	GATC	4 cut(s)	36, 334, 719, 807
LguI	GCTCTTC	2 cut(s)	125, 705
LmnI	GCTCC	4 cut(s)	446, 916, 1021, 1129
Lsp1109I	GCAGC	7 cut(s)	425, 635, 921, 931, 1198, 1210, 1213
LweI	GCATC	2 cut(s)	181, 945
MaeI	CTAG	3 cut(s)	597, 1008, 1231
MaeII	ACGT	3 cut(s)	562, 1085, 1215
MaeIII	GTNAC	2 cut(s)	835, 1086
MalI	GATC	4 cut(s)	38, 336, 721, 809
MboI	GATC	4 cut(s)	36, 334, 719, 807
MboII	GAAGA	6 cut(s)	112, 692, 905, 964, 1043, 1102
MfeI	CAATTG	1 cut(s)	483
MflI	RGATCY	1 cut(s)	807
MhlI	GDGCHC	2 cut(s)	302, 695
MluCI	AATT	3 cut(s)	102, 280, 483
MseI	TTAA	5 cut(s)	84, 141, 738, 900, 1038
MslI	CAYNNNNRTG	1 cut(s)	354
MspA1I	CMGCKG	1 cut(s)	922
MspCI	CTTAAG	1 cut(s)	737
MspI	CCGG	1 cut(s)	202
MspR9I	CCNGG	2 cut(s)	6, 461
MunI	CAATTG	1 cut(s)	483
Mva1269I	GAATGC	2 cut(s)	70, 349
MvaI	CCWGG	2 cut(s)	6, 461
MwoI	GCNNNNNNNGC	3 cut(s)	465, 629, 964
NdeI	CATATG	2 cut(s)	127, 930
NdeII	GATC	4 cut(s)	36, 334, 719, 807
NlaIII	CATG	2 cut(s)	34, 1021
NlaIV	GGNNCC	2 cut(s)	693, 1131
NmuCI	GTSAC	2 cut(s)	835, 1086
NsbI	TGCGCA	1 cut(s)	442
PciSI	GCTCTTC	2 cut(s)	125, 705
PctI	GAATGC	2 cut(s)	70, 349
PfeI	GAWTC	3 cut(s)	820, 830, 1107
PkrI	GCNGC	8 cut(s)	440, 474, 625, 921, 936, 1188, 1203, 1225
PshBI	ATTAAT	1 cut(s)	900
Psp6I	CCWGG	2 cut(s)	4, 459
PspGI	CCWGG	2 cut(s)	4, 459
PspN4I	GGNNCC	2 cut(s)	693, 1131
PspOMI	GGGCCC	1 cut(s)	691
PspPI	GGNCC	3 cut(s)	320, 691, 692
PstI	CTGCAG	2 cut(s)	793, 1188
PstNI	CAGNNNCTG	2 cut(s)	449, 1064
PsuI	RGATCY	1 cut(s)	807
PvuII	CAGCTG	1 cut(s)	922
RsaI	GTAC	1 cut(s)	248
RsaNI	GTAC	1 cut(s)	247
RseI	CAYNNNNRTG	1 cut(s)	354
SapI	GCTCTTC	2 cut(s)	125, 705
SaqAI	TTAA	5 cut(s)	84, 141, 738, 900, 1038
SatI	GCNGC	8 cut(s)	439, 473, 624, 920, 935, 1187, 1202, 1224
Sau3AI	GATC	4 cut(s)	36, 334, 719, 807
Sau96I	GGNCC	3 cut(s)	320, 691, 692
ScrFI	CCNGG	2 cut(s)	6, 461
SduI	GDGCHC	2 cut(s)	302, 695
SfaNI	GCATC	2 cut(s)	181, 945
SfcI	CTRYAG	2 cut(s)	789, 1184
SmiMI	CAYNNNNRTG	1 cut(s)	354
SmlI	CTYRAG	1 cut(s)	737
SmoI	CTYRAG	1 cut(s)	737
Sse9I	AATT	3 cut(s)	102, 280, 483
SsiI	CCGC	2 cut(s)	244, 473
SspMI	CTAG	3 cut(s)	597, 1008, 1231
StyD4I	CCNGG	2 cut(s)	4, 459
TaaI	ACNGT	2 cut(s)	554, 668
TaiI	ACGT	3 cut(s)	565, 1088, 1218
TaqI	TCGA	3 cut(s)	39, 514, 1193
TasI	AATT	3 cut(s)	102, 280, 483
TauI	GCSGC	1 cut(s)	475
TfiI	GAWTC	3 cut(s)	820, 830, 1107
Tru1I	TTAA	5 cut(s)	84, 141, 738, 900, 1038
Tru9I	TTAA	5 cut(s)	84, 141, 738, 900, 1038
TscAI	CASTG	3 cut(s)	228, 511, 559
TseFI	GTSAC	2 cut(s)	835, 1086
TseI	GCWGC	7 cut(s)	438, 623, 919, 934, 1186, 1201, 1223
Tsp45I	GTSAC	2 cut(s)	835, 1086
TspDTI	ATGAA	7 cut(s)	63, 560, 627, 675, 692, 816, 843
TspGWI	ACGGA	1 cut(s)	253
TspRI	CASTG	3 cut(s)	228, 511, 559
Vha464I	CTTAAG	1 cut(s)	737
VspI	ATTAAT	1 cut(s)	900
XapI	RAATTY	2 cut(s)	102, 280
XcmI	CCANNNNNNNNNTGG	1 cut(s)	194
XmiI	GTMKAC	2 cut(s)	549, 648
XspI	CTAG	3 cut(s)	597, 1008, 1231

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