Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0003651

Physical Location & Seq

Genomic Coordinates Reverse (-)

2029301 .. 2032144

Gene Structure 2844 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG014300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1251 bp

ATGTCAAACCCCGAAGACGACGACCTTGACCTCCTTCTCTCCCTGCAAGACAGGGTTTTGGAAACCCCTCCTGCCTCTCCTTCACGTTCCCCAGACTCAAGGTATCTTTCCGACGAGGATGAGTTGTCCCGCCGGAGAGGGCCGCCGGACATGTCCGTGTTCAGGGATGCTGTTCAGGACTGCCTCGATTACGATCACAAATCGGCACAGAAGACCATCAAATCCAAGCAAATCAGTTCCTCCAATGATTCAGAGGTTGAGAAATATTCGGGTTTGCGAATAAGGAAGCAGTTGTTAACTCCTTCAGAGCTTAAGGATCGGTTTTCAGACATCCGTTTTGTTCGGTTACCCAACATAAAGAACTATCTGGTTGGGGAAACTCTTTCAGGATGTTGGGCAACTGTTGGAGTGTTGACTGAGAAGGGGACTAAAAGAACTAGTTCTACGGGGAAGAGCTATTCGATATTCAAATTCGGGTGTTTGGATGAAGATACCGTTTCTGTTTTCTTGTTTGGTGATGCTTATGAGAGGAACTGCAATGAGCAGGCTGGAATGGTGTTTGCACTGTTTAATTGTAGCGTGCGCAAGGATTCTAAGGGTGCTGGTTTTTCTTTGAGCGTGTTTTCAGCCAATCAAATTGTGAAGATAGGAACTTCAGTTGATTATGGAGTTTGCAGAGGGAAAAGGAAGGATGGAATGGCTTGTAGTTTAGTCATAAATAAGCGCCAAGGAATATATTGTAAATTTCATAGATCGAAAGAATCACAGAAATATTCCACTATGCGAACTGAGCTCAAGGGAGGGAATTTGAGAACAGGATTTCGGAATCCATACCAGCCAGAAGGAGTTTTTATGGTCGATCCTCTAGCTGACAGAACAAACTCAAACAAGCGTAAGCAGCCAGTGAAGCTATTGTCTGTGGAAGGGCTTAAGAAGGCATTAAGTAAAGCAGATAAAGTGACTACAAATACGCATTCACAAGGAATAAGGTTTTTGGCCAAGGTCACAGGGACGACACATCCAAATGATGTGATTAAAGAGACAACAATGCAAAAGAAACAAATATCCAGCTTAGAGAAGAGGAAATCGTCTACCACAAGCATGGGTTCATCTGCAGTCATAAAAAACCAGCAAGTAGATGCAAAAAGAATGAAAACCGGAAAGGACAATAGTCTGGCAGACAAATCAAAGCAGGGCACTGGAAAGATGATTGAATTAGATTTCTATATTAGCTCGGATGAAGAGTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0003674 GO:0003676 GO:0003677 GO:0003688 GO:0003690 GO:0003697 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006270 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0031298 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0043596 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901576 GO:1990837

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-primase

Protein Analysis

416

Amino Acids

46.43

Weight (kDa)

9.38

Isoelectric Point (pI)

41.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
OB_MCM10	PF22379	88 - 214	5.2e-53	MCM10 OB-fold
zf-primase	PF09329	217 - 262	6.9e-14	Primase zinc finger

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: OG0003651)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G20980
fragaria_vesca	FvH4_1g02330 FvH4_2g01260 FvH4_2g01260 FvH4_2g01260 FvH4_2g01260 FvH4_2g01260 FvH4_2g01260 FvH4_2g23470 FvH4_3g06660 FvH4_5g37420
malus_domestica	MD10G1095100.v1.1
prunus_persica	Prupe.8G164900_v2.0.a1 Prupe.8G164900_v2.0.a1 Prupe.8G164900_v2.0.a1
pyrus_communis	pycom10g10650
rosa_chinensis	RchiOBHm_Chr5g0048301 RchiOBHm_Chr6g0251921
rosa_laevigata	RLG00000015419
rosa_multiflora	Rmu_co8059040.1_g000001 Rmu_ssc0000303.1_g000014
rosa_roxburghii	Rroxscaffold_7G00216300
rosa_rugosa	Rorug04G0092900 Rorug04G0092900 Rorug05G0504900 Rorug05G0505000 Rorug05G0505000 Rorug05G0505000 Rorug05G0505000 Rorug05G0505100
rosa_samantha	Rh6AG016300 Rh6BG014300 Rh6CG011100 Rh6DG012400
rosa_wichuraiana	Rw6G001560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	584
AccI	GTMKAC	1 cut(s)	1091
AciI	CCGC	2 cut(s)	130, 143
AclWI	GGATC	2 cut(s)	324, 854
AcoI	YGGCCR	1 cut(s)	996
AcsI	RAATTY	3 cut(s)	470, 743, 805
AcuI	CTGAAG	2 cut(s)	288, 639
AfiI	CCNNNNNNNGG	1 cut(s)	162
AflII	CTTAAG	2 cut(s)	311, 929
AflIII	ACRYGT	1 cut(s)	150
AgsI	TTSAA	2 cut(s)	469, 1214
AhlI	ACTAGT	1 cut(s)	437
AluBI	AGCT	7 cut(s)	310, 456, 793, 869, 910, 1071, 1233
AluI	AGCT	7 cut(s)	310, 456, 793, 869, 910, 1071, 1233
Alw21I	GWGCWC	1 cut(s)	795
Alw26I	GTCTC	1 cut(s)	1034
AlwI	GGATC	2 cut(s)	324, 854
AoxI	GGCC	2 cut(s)	140, 996
ApeKI	GCWGC	1 cut(s)	898
ApoI	RAATTY	3 cut(s)	470, 743, 805
ArsI	GACNNNNNNTTYG	2 cut(s)	320, 352
Asp700I	GAANNNNTTC	1 cut(s)	439
AspLEI	GCGC	2 cut(s)	585, 726
AspS9I	GGNCC	1 cut(s)	140
AsuHPI	GGTGA	1 cut(s)	527
BaeGI	GKGCMC	1 cut(s)	1199
BalI	TGGCCA	1 cut(s)	998
BanII	GRGCYC	1 cut(s)	795
BbsI	GAAGAC	2 cut(s)	21, 218
Bbv12I	GWGCWC	1 cut(s)	795
BbvI	GCAGC	1 cut(s)	910
BccI	CCATC	2 cut(s)	224, 686
BcoDI	GTCTC	1 cut(s)	1034
BcuI	ACTAGT	1 cut(s)	437
BfaI	CTAG	2 cut(s)	438, 866
BfmI	CTRYAG	1 cut(s)	1113
BfoI	RGCGCY	1 cut(s)	727
BfrI	CTTAAG	2 cut(s)	311, 929
BisI	GCNGC	2 cut(s)	143, 899
BlsI	GCNGC	2 cut(s)	144, 900
BmgT120I	GGNCC	1 cut(s)	140
BmsI	GCATC	3 cut(s)	157, 508, 1129
BoxI	GACNNNNGTC	1 cut(s)	1170
BpiI	GAAGAC	2 cut(s)	21, 218
BpuEI	CTTGAG	2 cut(s)	82, 779
BsaBI	GATNNNNATC	1 cut(s)	192
BsaJI	CCNNGG	2 cut(s)	727, 999
BsaWI	WCCGGW	1 cut(s)	1157
Bsc4I	CCNNNNNNNGG	1 cut(s)	162
Bse1I	ACTGG	2 cut(s)	902, 1204
Bse3DI	GCAATG	1 cut(s)	544
Bse8I	GATNNNNATC	1 cut(s)	192
BseDI	CCNNGG	2 cut(s)	727, 999
BseGI	GGATG	8 cut(s)	124, 172, 330, 395, 490, 697, 1018, 1243
BseJI	GATNNNNATC	1 cut(s)	192
BseLI	CCNNNNNNNGG	1 cut(s)	162
BseMI	GCAATG	1 cut(s)	544
BseMII	CTCAG	2 cut(s)	408, 780
BseNI	ACTGG	2 cut(s)	902, 1204
BseSI	GKGCMC	1 cut(s)	1199
BseXI	GCAGC	1 cut(s)	910
BshFI	GGCC	2 cut(s)	142, 998
BsiHKAI	GWGCWC	1 cut(s)	795
BsiSI	CCGG	3 cut(s)	133, 146, 1158
BslFI	GGGAC	3 cut(s)	112, 439, 1024
BslI	CCNNNNNNNGG	1 cut(s)	162
BsmAI	GTCTC	1 cut(s)	1034
BsmFI	GGGAC	3 cut(s)	112, 439, 1024
BsmI	GAATGC	1 cut(s)	973
BsnI	GGCC	2 cut(s)	142, 998
Bsp1286I	GDGCHC	2 cut(s)	795, 1199
Bsp143I	GATC	4 cut(s)	193, 316, 752, 859
BspACI	CCGC	2 cut(s)	130, 143
BspANI	GGCC	2 cut(s)	142, 998
BspCNI	CTCAG	2 cut(s)	409, 781
BspMAI	CTGCAG	1 cut(s)	1117
BspPI	GGATC	2 cut(s)	324, 854
BspQI	GCTCTTC	1 cut(s)	446
BspTI	CTTAAG	2 cut(s)	311, 929
BsrDI	GCAATG	1 cut(s)	544
BsrI	ACTGG	2 cut(s)	902, 1204
BssECI	CCNNGG	2 cut(s)	727, 999
BssMI	GATC	4 cut(s)	193, 316, 752, 859
BssT1I	CCWWGG	2 cut(s)	727, 999
Bst4CI	ACNGT	3 cut(s)	403, 496, 567
Bst6I	CTCTTC	3 cut(s)	446, 1073, 1236
BstAFI	CTTAAG	2 cut(s)	311, 929
BstC8I	GCNNGC	2 cut(s)	546, 581
BstDEI	CTNAG	4 cut(s)	417, 594, 789, 1072
BstEII	GGTNACC	1 cut(s)	345
BstF5I	GGATG	8 cut(s)	124, 172, 330, 395, 490, 697, 1018, 1243
BstH2I	RGCGCY	1 cut(s)	727
BstHHI	GCGC	2 cut(s)	585, 726
BstKTI	GATC	4 cut(s)	196, 319, 755, 862
BstMAI	GTCTC	1 cut(s)	1034
BstMBI	GATC	4 cut(s)	193, 316, 752, 859
BstMWI	GCNNNNNNNGC	3 cut(s)	790, 898, 907
BstNSI	RCATGY	1 cut(s)	154
BstPAI	GACNNNNGTC	1 cut(s)	1170
BstPI	GGTNACC	1 cut(s)	345
BstSFI	CTRYAG	1 cut(s)	1113
BstSLI	GKGCMC	1 cut(s)	1199
BstV1I	GCAGC	1 cut(s)	910
BstV2I	GAAGAC	2 cut(s)	21, 218
BstXI	CCANNNNNNTGG	1 cut(s)	1102
BsuRI	GGCC	2 cut(s)	142, 998
BtsCI	GGATG	8 cut(s)	124, 172, 330, 395, 490, 697, 1018, 1243
BtsIMutI	CAGTG	3 cut(s)	563, 909, 1197
Cac8I	GCNNGC	2 cut(s)	546, 581
CfoI	GCGC	2 cut(s)	585, 726
Cfr13I	GGNCC	1 cut(s)	140
CviAII	CATG	2 cut(s)	151, 1102
DdeI	CTNAG	4 cut(s)	417, 594, 789, 1072
DpnI	GATC	4 cut(s)	195, 318, 754, 861
DpnII	GATC	4 cut(s)	193, 316, 752, 859
EaeI	YGGCCR	1 cut(s)	996
Eam1104I	CTCTTC	3 cut(s)	446, 1073, 1236
EarI	CTCTTC	3 cut(s)	446, 1073, 1236
Ecl136II	GAGCTC	1 cut(s)	793
Eco130I	CCWWGG	2 cut(s)	727, 999
Eco24I	GRGCYC	1 cut(s)	795
Eco53kI	GAGCTC	1 cut(s)	793
Eco57I	CTGAAG	2 cut(s)	288, 639
Eco91I	GGTNACC	1 cut(s)	345
EcoICRI	GAGCTC	1 cut(s)	793
EcoO65I	GGTNACC	1 cut(s)	345
EcoT14I	CCWWGG	2 cut(s)	727, 999
EcoT38I	GRGCYC	1 cut(s)	795
ErhI	CCWWGG	2 cut(s)	727, 999
FaeI	CATG	2 cut(s)	154, 1105
FaqI	GGGAC	3 cut(s)	112, 439, 1024
FatI	CATG	2 cut(s)	150, 1101
FauI	CCCGC	1 cut(s)	137
FblI	GTMKAC	1 cut(s)	1091
Fnu4HI	GCNGC	2 cut(s)	143, 899
FokI	GGATG	7 cut(s)	131, 179, 317, 402, 497, 704, 1005
FriOI	GRGCYC	1 cut(s)	795
Fsp4HI	GCNGC	2 cut(s)	143, 899
FspBI	CTAG	2 cut(s)	438, 866
FspI	TGCGCA	1 cut(s)	584
GlaI	GCGC	2 cut(s)	584, 725
GluI	GCNGC	2 cut(s)	143, 899
HaeII	RGCGCY	1 cut(s)	727
HaeIII	GGCC	2 cut(s)	142, 998
HapII	CCGG	3 cut(s)	133, 146, 1158
HhaI	GCGC	2 cut(s)	585, 726
Hin1II	CATG	2 cut(s)	154, 1105
Hin6I	GCGC	2 cut(s)	583, 724
HinP1I	GCGC	2 cut(s)	583, 724
HincII	GTYRAC	2 cut(s)	297, 414
HindII	GTYRAC	2 cut(s)	297, 414
HinfI	GANTC	5 cut(s)	95, 248, 590, 761, 826
HpaI	GTTAAC	1 cut(s)	297
HpaII	CCGG	3 cut(s)	133, 146, 1158
HphI	GGTGA	1 cut(s)	527
Hpy166II	GTNNAC	3 cut(s)	297, 414, 1092
Hpy188I	TCNGA	6 cut(s)	112, 253, 307, 328, 825, 1237
Hpy188III	TCNNGA	2 cut(s)	176, 387
Hpy8I	GTNNAC	3 cut(s)	297, 414, 1092
Hpy99I	CGWCG	2 cut(s)	23, 116
HpyAV	CCTTC	8 cut(s)	44, 90, 312, 415, 682, 836, 917, 928
HpyCH4III	ACNGT	3 cut(s)	403, 496, 567
HpyCH4IV	ACGT	1 cut(s)	85
HpyCH4V	TGCA	7 cut(s)	46, 537, 563, 675, 1051, 1115, 1142
HpyF10VI	GCNNNNNNNGC	3 cut(s)	790, 898, 907
HpyF3I	CTNAG	4 cut(s)	417, 594, 789, 1072
HpySE526I	ACGT	1 cut(s)	85
Hsp92II	CATG	2 cut(s)	154, 1105
HspAI	GCGC	2 cut(s)	583, 724
KspAI	GTTAAC	1 cut(s)	297
Kzo9I	GATC	4 cut(s)	193, 316, 752, 859
LguI	GCTCTTC	1 cut(s)	446
Lsp1109I	GCAGC	1 cut(s)	910
LweI	GCATC	3 cut(s)	157, 508, 1129
MaeI	CTAG	2 cut(s)	438, 866
MaeII	ACGT	1 cut(s)	85
MaeIII	GTNAC	3 cut(s)	345, 958, 1003
MalI	GATC	4 cut(s)	195, 318, 754, 861
MboI	GATC	4 cut(s)	193, 316, 752, 859
MboII	GAAGA	6 cut(s)	26, 223, 463, 500, 655, 1090
MhlI	GDGCHC	2 cut(s)	795, 1199
MlsI	TGGCCA	1 cut(s)	998
MluCI	AATT	6 cut(s)	470, 571, 636, 743, 805, 1214
MluNI	TGGCCA	1 cut(s)	998
MlyI	GAGTC	1 cut(s)	89
MmeI	TCCRAC	2 cut(s)	135, 385
Mox20I	TGGCCA	1 cut(s)	998
MroXI	GAANNNNTTC	1 cut(s)	439
MscI	TGGCCA	1 cut(s)	998
MseI	TTAA	6 cut(s)	296, 312, 570, 930, 941, 1035
MslI	CAYNNNNRTG	3 cut(s)	155, 1023, 1100
Msp20I	TGGCCA	1 cut(s)	998
MspCI	CTTAAG	2 cut(s)	311, 929
MspI	CCGG	3 cut(s)	133, 146, 1158
Mva1269I	GAATGC	1 cut(s)	973
MwoI	GCNNNNNNNGC	3 cut(s)	790, 898, 907
NdeII	GATC	4 cut(s)	193, 316, 752, 859
NlaIII	CATG	2 cut(s)	154, 1105
NmuCI	GTSAC	2 cut(s)	958, 1003
NsbI	TGCGCA	1 cut(s)	584
NspI	RCATGY	1 cut(s)	154
PciI	ACATGT	1 cut(s)	150
PciSI	GCTCTTC	1 cut(s)	446
PctI	GAATGC	1 cut(s)	973
PdmI	GAANNNNTTC	1 cut(s)	439
PfeI	GAWTC	4 cut(s)	248, 590, 761, 826
PkrI	GCNGC	2 cut(s)	144, 900
PleI	GAGTC	1 cut(s)	89
PpsI	GAGTC	1 cut(s)	89
PscI	ACATGT	1 cut(s)	150
PshAI	GACNNNNGTC	1 cut(s)	1170
Psp124BI	GAGCTC	1 cut(s)	795
PspEI	GGTNACC	1 cut(s)	345
PspPI	GGNCC	1 cut(s)	140
PsrI	GAACNNNNNNTAC	2 cut(s)	427, 459
PstI	CTGCAG	1 cut(s)	1117
RseI	CAYNNNNRTG	3 cut(s)	155, 1023, 1100
SacI	GAGCTC	1 cut(s)	795
SapI	GCTCTTC	1 cut(s)	446
SaqAI	TTAA	6 cut(s)	296, 312, 570, 930, 941, 1035
SatI	GCNGC	2 cut(s)	143, 899
Sau3AI	GATC	4 cut(s)	193, 316, 752, 859
Sau96I	GGNCC	1 cut(s)	140
SchI	GAGTC	1 cut(s)	89
SduI	GDGCHC	2 cut(s)	795, 1199
SfaNI	GCATC	3 cut(s)	157, 508, 1129
SfcI	CTRYAG	1 cut(s)	1113
SmiMI	CAYNNNNRTG	3 cut(s)	155, 1023, 1100
SmlI	CTYRAG	4 cut(s)	97, 311, 794, 929
SmoI	CTYRAG	4 cut(s)	97, 311, 794, 929
SpeI	ACTAGT	1 cut(s)	437
Sse9I	AATT	6 cut(s)	470, 571, 636, 743, 805, 1214
SsiI	CCGC	2 cut(s)	130, 143
SspI	AATATT	2 cut(s)	266, 773
SspMI	CTAG	2 cut(s)	438, 866
SstI	GAGCTC	1 cut(s)	795
StyI	CCWWGG	2 cut(s)	727, 999
TaaI	ACNGT	3 cut(s)	403, 496, 567
TaiI	ACGT	1 cut(s)	88
TaqI	TCGA	4 cut(s)	186, 461, 755, 858
TasI	AATT	6 cut(s)	470, 571, 636, 743, 805, 1214
TauI	GCSGC	1 cut(s)	145
TfiI	GAWTC	4 cut(s)	248, 590, 761, 826
Tru1I	TTAA	6 cut(s)	296, 312, 570, 930, 941, 1035
Tru9I	TTAA	6 cut(s)	296, 312, 570, 930, 941, 1035
TscAI	CASTG	3 cut(s)	570, 909, 1204
TseFI	GTSAC	2 cut(s)	958, 1003
TseI	GCWGC	1 cut(s)	898
Tsp45I	GTSAC	2 cut(s)	958, 1003
TspDTI	ATGAA	4 cut(s)	501, 737, 1098, 1166
TspGWI	ACGGA	2 cut(s)	145, 323
TspRI	CASTG	3 cut(s)	570, 909, 1204
Vha464I	CTTAAG	2 cut(s)	311, 929
XapI	RAATTY	3 cut(s)	470, 743, 805
XceI	RCATGY	1 cut(s)	154
XmiI	GTMKAC	1 cut(s)	1091
XmnI	GAANNNNTTC	1 cut(s)	439
XspI	CTAG	2 cut(s)	438, 866

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