Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0003651

Physical Location & Seq

Genomic Coordinates Reverse (-)

1272501 .. 1275973

Gene Structure 3473 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG011100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGTCAAACCGCGAAGACGACGACCTTGACCTCCTTCTCTCCCTGCAAGACAGGGTTTTGGAAACCCCTCCTGCCTCTCCTTCACGTTCCCCAGACTCAAGGTATCTTTCCGACGAGGATGAGTTGTCCCGCCGGAGAGGGCCGCCGGACATGTCCGTATTCAGGGATGCTGTTCAGGACTGCCTCGATTACGATCACAAATCGGCACAGAAGACCATCAAATCCAAGCAAATCAGTTCCTCCAATGATTCAGAGGTTGAGAAATATTCGGGTTTGCGAATAAGGAAGCAGTTGTTAACTCCTTCAGAGCTTAAGGATCGGTTTTCAGACATCCGTTTTGTTCGGTTACCCAATATAAAGAACTATCTGGTTGGGGAGACTCTTTCAGGATGTTGGGCAACTGTTGGAGTGTTGACTGAGAAGGGGACTAAAAGAACTAGTTCTACGGGGAAGAGCTATTCGATATTCAAATTCGGGTGTTTGGATGAAGATACCGTTTCTGTTTTCTTGTTTGGTGATGCTTATGAGAGGAACTGCAATGAGCAGGCTGGAATGGTGTTTGCACTGTTTAATTGTAGCGTACGCAAGGATGCTAAGGGTGCTGGTTTTTCTTTGAGCGTGTTTTCAGCCAATCAAATTGTGAAGATAGGAACTTCAGTTGATTATGGAGTTTGCAGAGGGAAAAGGAAGGATGGAATGGCTTGTAGTTTAGTCATAAATAAGCGCCAAGGAATATATTGTAAATTTCATAGATCGAAAGAATCACAGAAATATTCCACTATGCGAACTGAGCTCAAGGGAGGGAATTTGAGAACAGGATTTCGGAACCCGTACCAGCCAGAAGGAGTTTTTATGGTCGATCCTCTAGCTGACAGAACAAACTCGAACAAGCGTAAGCAGCCGGTGAAGCTATTGTCTGTGGAAGGGCTTAAGAAGGCATTAAGGTTTGTCATAGATAGCATATTTAGGATAGCTATTTAA

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

326

Amino Acids

36.7

Weight (kDa)

9.33

Isoelectric Point (pI)

46.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
OB_MCM10	PF22379	88 - 214	3.3e-53	MCM10 OB-fold
zf-primase	PF09329	217 - 262	4.9e-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)
AccII	CGCG	1 cut(s)	12
AciI	CCGC	3 cut(s)	10, 130, 143
AclWI	GGATC	2 cut(s)	324, 854
AcsI	RAATTY	3 cut(s)	470, 743, 805
AcuI	CTGAAG	2 cut(s)	288, 639
AfaI	GTAC	2 cut(s)	582, 833
AfiI	CCNNNNNNNGG	1 cut(s)	162
AflII	CTTAAG	2 cut(s)	311, 929
AflIII	ACRYGT	1 cut(s)	150
AgsI	TTSAA	1 cut(s)	469
AhlI	ACTAGT	1 cut(s)	437
AluBI	AGCT	6 cut(s)	310, 456, 793, 869, 910, 974
AluI	AGCT	6 cut(s)	310, 456, 793, 869, 910, 974
Alw21I	GWGCWC	1 cut(s)	795
Alw26I	GTCTC	1 cut(s)	371
AlwI	GGATC	2 cut(s)	324, 854
AoxI	GGCC	1 cut(s)	140
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	1 cut(s)	726
AspS9I	GGNCC	1 cut(s)	140
AsuHPI	GGTGA	2 cut(s)	527, 916
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)	371
BcuI	ACTAGT	1 cut(s)	437
BfaI	CTAG	2 cut(s)	438, 866
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
BmiI	GGNNCC	1 cut(s)	827
BmsI	GCATC	3 cut(s)	157, 508, 580
BpiI	GAAGAC	2 cut(s)	21, 218
Bpu10I	CCTNAGC	1 cut(s)	594
BpuEI	CTTGAG	2 cut(s)	82, 779
BsaBI	GATNNNNATC	1 cut(s)	192
BsaJI	CCNNGG	1 cut(s)	727
Bsc4I	CCNNNNNNNGG	1 cut(s)	162
Bse118I	RCCGGY	1 cut(s)	901
Bse3DI	GCAATG	1 cut(s)	544
Bse8I	GATNNNNATC	1 cut(s)	192
BseDI	CCNNGG	1 cut(s)	727
BseGI	GGATG	7 cut(s)	124, 172, 330, 395, 490, 595, 697
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
BseXI	GCAGC	1 cut(s)	910
Bsh1236I	CGCG	1 cut(s)	12
BshFI	GGCC	1 cut(s)	142
BsiHKAI	GWGCWC	1 cut(s)	795
BsiSI	CCGG	3 cut(s)	133, 146, 902
BsiWI	CGTACG	1 cut(s)	580
BslFI	GGGAC	2 cut(s)	112, 439
BslI	CCNNNNNNNGG	1 cut(s)	162
BsmAI	GTCTC	1 cut(s)	371
BsmFI	GGGAC	2 cut(s)	112, 439
BsnI	GGCC	1 cut(s)	142
Bsp1286I	GDGCHC	1 cut(s)	795
Bsp143I	GATC	4 cut(s)	193, 316, 752, 859
BspACI	CCGC	3 cut(s)	10, 130, 143
BspANI	GGCC	1 cut(s)	142
BspCNI	CTCAG	2 cut(s)	409, 781
BspFNI	CGCG	1 cut(s)	12
BspLI	GGNNCC	1 cut(s)	827
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
BsrFI	RCCGGY	1 cut(s)	901
BssAI	RCCGGY	1 cut(s)	901
BssECI	CCNNGG	1 cut(s)	727
BssMI	GATC	4 cut(s)	193, 316, 752, 859
BssT1I	CCWWGG	1 cut(s)	727
Bst4CI	ACNGT	3 cut(s)	403, 496, 567
Bst6I	CTCTTC	1 cut(s)	446
BstAFI	CTTAAG	2 cut(s)	311, 929
BstC8I	GCNNGC	1 cut(s)	546
BstDEI	CTNAG	3 cut(s)	417, 594, 789
BstEII	GGTNACC	1 cut(s)	345
BstF5I	GGATG	7 cut(s)	124, 172, 330, 395, 490, 595, 697
BstFNI	CGCG	1 cut(s)	12
BstH2I	RGCGCY	1 cut(s)	727
BstHHI	GCGC	1 cut(s)	726
BstKTI	GATC	4 cut(s)	196, 319, 755, 862
BstMAI	GTCTC	1 cut(s)	371
BstMBI	GATC	4 cut(s)	193, 316, 752, 859
BstMWI	GCNNNNNNNGC	4 cut(s)	599, 790, 898, 907
BstNSI	RCATGY	1 cut(s)	154
BstPI	GGTNACC	1 cut(s)	345
BstUI	CGCG	1 cut(s)	12
BstV1I	GCAGC	1 cut(s)	910
BstV2I	GAAGAC	2 cut(s)	21, 218
BsuRI	GGCC	1 cut(s)	142
BtsCI	GGATG	7 cut(s)	124, 172, 330, 395, 490, 595, 697
BtsIMutI	CAGTG	1 cut(s)	563
Cac8I	GCNNGC	1 cut(s)	546
CfoI	GCGC	1 cut(s)	726
Cfr10I	RCCGGY	1 cut(s)	901
Cfr13I	GGNCC	1 cut(s)	140
Csp6I	GTAC	2 cut(s)	581, 832
CviAII	CATG	1 cut(s)	151
CviQI	GTAC	2 cut(s)	581, 832
DdeI	CTNAG	3 cut(s)	417, 594, 789
DpnI	GATC	4 cut(s)	195, 318, 754, 861
DpnII	GATC	4 cut(s)	193, 316, 752, 859
Eam1104I	CTCTTC	1 cut(s)	446
EarI	CTCTTC	1 cut(s)	446
Ecl136II	GAGCTC	1 cut(s)	793
Eco130I	CCWWGG	1 cut(s)	727
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	1 cut(s)	727
EcoT38I	GRGCYC	1 cut(s)	795
ErhI	CCWWGG	1 cut(s)	727
FaeI	CATG	1 cut(s)	154
FaqI	GGGAC	2 cut(s)	112, 439
FatI	CATG	1 cut(s)	150
FauI	CCCGC	1 cut(s)	137
Fnu4HI	GCNGC	2 cut(s)	143, 899
FokI	GGATG	7 cut(s)	131, 179, 317, 402, 497, 602, 704
FriOI	GRGCYC	1 cut(s)	795
Fsp4HI	GCNGC	2 cut(s)	143, 899
FspBI	CTAG	2 cut(s)	438, 866
GlaI	GCGC	1 cut(s)	725
GluI	GCNGC	2 cut(s)	143, 899
HaeII	RGCGCY	1 cut(s)	727
HaeIII	GGCC	1 cut(s)	142
HapII	CCGG	3 cut(s)	133, 146, 902
HhaI	GCGC	1 cut(s)	726
Hin1II	CATG	1 cut(s)	154
Hin6I	GCGC	1 cut(s)	724
HinP1I	GCGC	1 cut(s)	724
HincII	GTYRAC	2 cut(s)	297, 414
HindII	GTYRAC	2 cut(s)	297, 414
HinfI	GANTC	4 cut(s)	95, 248, 379, 761
HpaI	GTTAAC	1 cut(s)	297
HpaII	CCGG	3 cut(s)	133, 146, 902
HphI	GGTGA	2 cut(s)	527, 916
Hpy166II	GTNNAC	2 cut(s)	297, 414
Hpy188I	TCNGA	5 cut(s)	112, 253, 307, 328, 825
Hpy188III	TCNNGA	2 cut(s)	176, 387
Hpy8I	GTNNAC	2 cut(s)	297, 414
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	4 cut(s)	46, 537, 563, 675
HpyF10VI	GCNNNNNNNGC	4 cut(s)	599, 790, 898, 907
HpyF3I	CTNAG	3 cut(s)	417, 594, 789
HpySE526I	ACGT	1 cut(s)	85
Hsp92II	CATG	1 cut(s)	154
HspAI	GCGC	1 cut(s)	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, 580
MaeI	CTAG	2 cut(s)	438, 866
MaeII	ACGT	1 cut(s)	85
MaeIII	GTNAC	1 cut(s)	345
MalI	GATC	4 cut(s)	195, 318, 754, 861
MboI	GATC	4 cut(s)	193, 316, 752, 859
MboII	GAAGA	5 cut(s)	26, 223, 463, 500, 655
MhlI	GDGCHC	1 cut(s)	795
MluCI	AATT	5 cut(s)	470, 571, 636, 743, 805
MlyI	GAGTC	2 cut(s)	89, 373
MmeI	TCCRAC	2 cut(s)	135, 385
MroXI	GAANNNNTTC	1 cut(s)	439
MseI	TTAA	6 cut(s)	296, 312, 570, 930, 941, 979
MspCI	CTTAAG	2 cut(s)	311, 929
MspI	CCGG	3 cut(s)	133, 146, 902
MvnI	CGCG	1 cut(s)	12
MwoI	GCNNNNNNNGC	4 cut(s)	599, 790, 898, 907
NdeII	GATC	4 cut(s)	193, 316, 752, 859
NlaIII	CATG	1 cut(s)	154
NlaIV	GGNNCC	1 cut(s)	827
NspI	RCATGY	1 cut(s)	154
PciI	ACATGT	1 cut(s)	150
PciSI	GCTCTTC	1 cut(s)	446
PdmI	GAANNNNTTC	1 cut(s)	439
PfeI	GAWTC	2 cut(s)	248, 761
Pfl23II	CGTACG	1 cut(s)	580
PkrI	GCNGC	2 cut(s)	144, 900
PleI	GAGTC	2 cut(s)	89, 373
PpsI	GAGTC	2 cut(s)	89, 373
PscI	ACATGT	1 cut(s)	150
Psp124BI	GAGCTC	1 cut(s)	795
PspEI	GGTNACC	1 cut(s)	345
PspLI	CGTACG	1 cut(s)	580
PspN4I	GGNNCC	1 cut(s)	827
PspPI	GGNCC	1 cut(s)	140
PsrI	GAACNNNNNNTAC	2 cut(s)	427, 459
RsaI	GTAC	2 cut(s)	582, 833
RsaNI	GTAC	2 cut(s)	581, 832
SacI	GAGCTC	1 cut(s)	795
SapI	GCTCTTC	1 cut(s)	446
SaqAI	TTAA	6 cut(s)	296, 312, 570, 930, 941, 979
SatI	GCNGC	2 cut(s)	143, 899
Sau3AI	GATC	4 cut(s)	193, 316, 752, 859
Sau96I	GGNCC	1 cut(s)	140
SchI	GAGTC	2 cut(s)	89, 373
SduI	GDGCHC	1 cut(s)	795
SfaNI	GCATC	3 cut(s)	157, 508, 580
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	5 cut(s)	470, 571, 636, 743, 805
SsiI	CCGC	3 cut(s)	10, 130, 143
SspI	AATATT	2 cut(s)	266, 773
SspMI	CTAG	2 cut(s)	438, 866
SstI	GAGCTC	1 cut(s)	795
StyI	CCWWGG	1 cut(s)	727
TaaI	ACNGT	3 cut(s)	403, 496, 567
TaiI	ACGT	1 cut(s)	88
TaqI	TCGA	5 cut(s)	186, 461, 755, 858, 884
TasI	AATT	5 cut(s)	470, 571, 636, 743, 805
TauI	GCSGC	1 cut(s)	145
TfiI	GAWTC	2 cut(s)	248, 761
Tru1I	TTAA	6 cut(s)	296, 312, 570, 930, 941, 979
Tru9I	TTAA	6 cut(s)	296, 312, 570, 930, 941, 979
TscAI	CASTG	1 cut(s)	570
TseI	GCWGC	1 cut(s)	898
TspDTI	ATGAA	2 cut(s)	501, 737
TspGWI	ACGGA	2 cut(s)	145, 323
TspRI	CASTG	1 cut(s)	570
Vha464I	CTTAAG	2 cut(s)	311, 929
XapI	RAATTY	3 cut(s)	470, 743, 805
XceI	RCATGY	1 cut(s)	154
XmnI	GAANNNNTTC	1 cut(s)	439
XspI	CTAG	2 cut(s)	438, 866

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