Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0016009

Physical Location & Seq

Genomic Coordinates Forward (+)

10376742 .. 10381557

Gene Structure 4816 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG122500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGGACGGTGGGTCTTCTTCTTCTTCTTCTTCATCTTCCGGCGGAAACTTCAAGCTCTACGAGAAGCTGGAGTTGCAGGAGTTTCCGGACAAGTTCGTCGTCAAATCAGTCGAAGCTCCCGATCAAGGCTTCGTGATCGCCCGCCGCGACGGGACTATCGAACCGCTTGACGGTGATTCTTCTTCTGCAAGTCCGTCCAAAACGTCGACGATATATGGAGTCGTCGGAACGATCAGATTGCTTGCAGGAAATTACTTGCTTGTAATAACTTCTCGGATAGAAGTTGGGAACTATCTTGGCTTCCCTGTTTACCGGGTGACTTCTATGAAGTTTCTTTCCTGCAATGAGGTGTTGAAGCTCTCAACTGCTCAAGAACATGGTGATGAAGGTGAACTAAGCAAGGCATTTGCTAATGAGACGCAAAATCTGCCAAACGTGAGATACGTTCCATTTGACTTCCATCATATATGTGGCAACTCAAATTTTGAAAACTTAAAGGTCTTATACGAGCAACTATCAGAGCTACTTGAAAACCAAGGATACTTTCTCGTTGATGCGGAAGGAAACATACTGGAGGACCAGAAAGGAATTGTCAGATCTAACTGCATTGACTGTCTCGATAGAACAAATGTTACCCAGAGTTACTTGGCTCAGAAGTGTCTGGATGCCCAGTTGCAGAGGATGGGAGTGCTTGATTCAACTGAGTCCATTTCTGTGTTTGATGAAGAGTATCAAAAATTCCGAACATTGTGGGCTGAGCATGGTGATGAGATAAGCCTTGAGTATGCTGGGACTTACGCCTTGAAAGGGGACCTAGTTAGGTATGGAAAACAGACATTTGGAGGAATGATTAGAGATGGGATGAGTGCTCTTTCAAGATATTATTTGAATAACTTTCAGGATGGTATTCGGCAGGATGCTGCTGATCTTATCAGTGGCCACTATACTGTTAGGAGGGATGGTTCAGTACTTCCTGGCAGTTGTACAACAAAACAAATCTCTTGGGTTCATCAGATTAATGGAATATCTACCGGTGGCATCAGCTTTGCTAATCGGAGGTTTGACGCTGACATCTTTCACACTTCAGCAAGCGGGGCGAAACGCCCACCAATTTATGAGTTCTGTACTTTGGGCTGGAATGACTGCCGGATTAGCAGCAGTGGTGAAAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006629 GO:0006644 GO:0006650 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0009987 GO:0012505 GO:0016020 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019637 GO:0030258 GO:0031984 GO:0034596 GO:0042175 GO:0042578 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043812 GO:0044237 GO:0044238 GO:0044255 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0046486 GO:0046488 GO:0046839 GO:0046856 GO:0052744 GO:0052866 GO:0071704 GO:0098827

KEGG Pathways

Metabolic & Signaling

ko00562 ko01100 ko04070 map00562 map01100 map04070

Pfam Domains

Protein Families

Syja_N

Protein Analysis

390

Amino Acids

43.16

Weight (kDa)

5.02

Isoelectric Point (pI)

43.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Syja_N	PF02383	72 - 117	2.3e-06	SacI homology domain

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: OG0016009)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51830
fragaria_vesca	FvH4_6g11250
malus_domestica	MD04G1159300.v1.1
prunus_persica	Prupe.6G279500_v2.0.a1
pyrus_communis	pycom04g14090
rosa_chinensis	RchiOBHm_Chr3g0462771
rosa_laevigata	RLG00000024834
rosa_roxburghii	Rroxscaffold_6G00417220
rosa_rugosa	Rorug03G0059100 Rorug03G0059100
rosa_samantha	Rh3AG117100 Rh3BG120900 Rh3CG123800 Rh3DG122500
rosa_wichuraiana	Rw3G009920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	95
AccI	GTMKAC	1 cut(s)	206
AccII	CGCG	1 cut(s)	147
AccIII	TCCGGA	1 cut(s)	85
AciI	CCGC	6 cut(s)	42, 142, 145, 164, 557, 1092
AcoI	YGGCCR	1 cut(s)	937
AcsI	RAATTY	2 cut(s)	481, 737
AcuI	CTGAAG	1 cut(s)	1068
AfaI	GTAC	3 cut(s)	969, 985, 1126
AfiI	CCNNNNNNNGG	3 cut(s)	125, 170, 807
AgeI	ACCGGT	1 cut(s)	1031
AgsI	TTSAA	8 cut(s)	52, 355, 488, 530, 699, 805, 876, 889
AhdI	GACNNNNNGTC	1 cut(s)	10
AjnI	CCWGG	1 cut(s)	973
AjuI	GAANNNNNNNTTGG	2 cut(s)	528, 560
AloI	GAACNNNNNNTCC	2 cut(s)	946, 978
AluBI	AGCT	7 cut(s)	55, 67, 116, 358, 523, 1044, 1170
AluI	AGCT	7 cut(s)	55, 67, 116, 358, 523, 1044, 1170
Alw21I	GWGCWC	1 cut(s)	871
Alw26I	GTCTC	2 cut(s)	410, 620
Aor13HI	TCCGGA	1 cut(s)	85
AoxI	GGCC	1 cut(s)	937
ApeKI	GCWGC	2 cut(s)	920, 1155
ApoI	RAATTY	2 cut(s)	481, 737
AseI	ATTAAT	1 cut(s)	1017
AsiGI	ACCGGT	1 cut(s)	1031
AspS9I	GGNCC	2 cut(s)	577, 811
AsuC2I	CCSGG	1 cut(s)	314
AsuHPI	GGTGA	5 cut(s)	185, 328, 392, 401, 776
AvaII	GGWCC	2 cut(s)	577, 811
BalI	TGGCCA	1 cut(s)	939
BarI	GAAGNNNNNNTAC	2 cut(s)	552, 584
BbsI	GAAGAC	1 cut(s)	6
Bbv12I	GWGCWC	1 cut(s)	871
BbvI	GCAGC	2 cut(s)	907, 1167
BccI	CCATC	5 cut(s)	468, 676, 851, 896, 953
BcgI	CGANNNNNNTGC	2 cut(s)	220, 254
BciT130I	CCWGG	1 cut(s)	975
BciVI	GTATCC	1 cut(s)	533
BcnI	CCSGG	1 cut(s)	314
BcoDI	GTCTC	2 cut(s)	410, 620
BfaI	CTAG	1 cut(s)	815
BfuI	GTATCC	1 cut(s)	533
BglII	AGATCT	1 cut(s)	596
BisI	GCNGC	3 cut(s)	145, 921, 1156
BlpI	GCTNAGC	1 cut(s)	756
BlsI	GCNGC	3 cut(s)	146, 922, 1157
BmcAI	AGTACT	1 cut(s)	969
Bme1390I	CCNGG	2 cut(s)	314, 975
Bme18I	GGWCC	2 cut(s)	577, 811
BmeRI	GACNNNNNGTC	1 cut(s)	10
BmgT120I	GGNCC	2 cut(s)	577, 811
BmiI	GGNNCC	1 cut(s)	812
BmrFI	CCNGG	2 cut(s)	314, 975
BmrI	ACTGGG	1 cut(s)	664
BmsI	GCATC	4 cut(s)	544, 655, 907, 1047
BmuI	ACTGGG	1 cut(s)	664
BpiI	GAAGAC	1 cut(s)	6
BpmI	CTGGAG	2 cut(s)	89, 593
Bpu1102I	GCTNAGC	1 cut(s)	756
BpuEI	CTTGAG	2 cut(s)	354, 800
BpuMI	CCSGG	1 cut(s)	314
BsaJI	CCNNGG	1 cut(s)	535
BsaWI	WCCGGW	2 cut(s)	85, 1031
BsaXI	ACNNNNNCTCC	2 cut(s)	946, 976
Bsc4I	CCNNNNNNNGG	3 cut(s)	125, 170, 807
Bse118I	RCCGGY	1 cut(s)	1031
Bse1I	ACTGG	2 cut(s)	576, 670
Bse3DI	GCAATG	1 cut(s)	349
BseAI	TCCGGA	1 cut(s)	85
BseBI	CCWGG	1 cut(s)	975
BseDI	CCNNGG	1 cut(s)	535
BseGI	GGATG	6 cut(s)	670, 687, 867, 907, 922, 964
BseLI	CCNNNNNNNGG	3 cut(s)	125, 170, 807
BseMI	GCAATG	1 cut(s)	349
BseMII	CTCAG	3 cut(s)	665, 693, 747
BseNI	ACTGG	2 cut(s)	576, 670
BseXI	GCAGC	2 cut(s)	907, 1167
BseYI	CCCAGC	1 cut(s)	788
Bsh1236I	CGCG	1 cut(s)	147
BshFI	GGCC	1 cut(s)	939
BshTI	ACCGGT	1 cut(s)	1031
BsiHKAI	GWGCWC	1 cut(s)	871
BsiSI	CCGG	5 cut(s)	39, 86, 313, 1032, 1147
BslFI	GGGAC	3 cut(s)	166, 805, 824
BslI	CCNNNNNNNGG	3 cut(s)	125, 170, 807
BsmAI	GTCTC	2 cut(s)	410, 620
BsmBI	CGTCTC	1 cut(s)	410
BsmFI	GGGAC	3 cut(s)	166, 805, 824
BsnI	GGCC	1 cut(s)	939
Bsp1286I	GDGCHC	1 cut(s)	871
Bsp13I	TCCGGA	1 cut(s)	85
Bsp1407I	TGTACA	1 cut(s)	983
Bsp143I	GATC	5 cut(s)	121, 135, 231, 596, 925
Bsp1720I	GCTNAGC	1 cut(s)	756
BspACI	CCGC	6 cut(s)	42, 142, 145, 164, 557, 1092
BspANI	GGCC	1 cut(s)	939
BspCNI	CTCAG	3 cut(s)	664, 694, 748
BspEI	TCCGGA	1 cut(s)	85
BspFNI	CGCG	1 cut(s)	147
BspLI	GGNNCC	1 cut(s)	812
BsrDI	GCAATG	1 cut(s)	349
BsrFI	RCCGGY	1 cut(s)	1031
BsrGI	TGTACA	1 cut(s)	983
BsrI	ACTGG	2 cut(s)	576, 670
BssAI	RCCGGY	1 cut(s)	1031
BssECI	CCNNGG	1 cut(s)	535
BssMI	GATC	5 cut(s)	121, 135, 231, 596, 925
BssT1I	CCWWGG	1 cut(s)	535
Bst2UI	CCWGG	1 cut(s)	975
Bst4CI	ACNGT	4 cut(s)	8, 173, 614, 949
Bst6I	CTCTTC	1 cut(s)	720
BstAPI	GCANNNNNTGC	1 cut(s)	427
BstAUI	TGTACA	1 cut(s)	983
BstC8I	GCNNGC	3 cut(s)	142, 243, 1090
BstDEI	CTNAG	4 cut(s)	395, 651, 702, 756
BstF5I	GGATG	6 cut(s)	670, 687, 867, 907, 922, 964
BstFNI	CGCG	1 cut(s)	147
BstKTI	GATC	5 cut(s)	124, 138, 234, 599, 928
BstMAI	GTCTC	2 cut(s)	410, 620
BstMBI	GATC	5 cut(s)	121, 135, 231, 596, 925
BstMWI	GCNNNNNNNGC	4 cut(s)	73, 427, 1094, 1152
BstNI	CCWGG	1 cut(s)	975
BstSCI	CCNGG	2 cut(s)	312, 973
BstUI	CGCG	1 cut(s)	147
BstV1I	GCAGC	2 cut(s)	907, 1167
BstV2I	GAAGAC	1 cut(s)	6
BstX2I	RGATCY	1 cut(s)	596
BstYI	RGATCY	1 cut(s)	596
BsuI	GTATCC	1 cut(s)	533
BsuRI	GGCC	1 cut(s)	939
BtsCI	GGATG	6 cut(s)	670, 687, 867, 907, 922, 964
BtsI	GCAGTG	1 cut(s)	1165
BtsIMutI	CAGTG	2 cut(s)	940, 1165
Cac8I	GCNNGC	3 cut(s)	142, 243, 1090
Cfr10I	RCCGGY	1 cut(s)	1031
Cfr13I	GGNCC	2 cut(s)	577, 811
CseI	GACGC	2 cut(s)	427, 1073
Csp6I	GTAC	3 cut(s)	968, 984, 1125
CspAI	ACCGGT	1 cut(s)	1031
CviAII	CATG	2 cut(s)	377, 761
CviQI	GTAC	3 cut(s)	968, 984, 1125
DdeI	CTNAG	4 cut(s)	395, 651, 702, 756
DpnI	GATC	5 cut(s)	123, 137, 233, 598, 927
DpnII	GATC	5 cut(s)	121, 135, 231, 596, 925
DrdI	GACNNNNNNGTC	1 cut(s)	95
DriI	GACNNNNNGTC	1 cut(s)	10
DseDI	GACNNNNNNGTC	1 cut(s)	95
EaeI	YGGCCR	1 cut(s)	937
Eam1104I	CTCTTC	1 cut(s)	720
Eam1105I	GACNNNNNGTC	1 cut(s)	10
EarI	CTCTTC	1 cut(s)	720
EciI	GGCGGA	1 cut(s)	57
Eco130I	CCWWGG	1 cut(s)	535
Eco47I	GGWCC	2 cut(s)	577, 811
Eco57I	CTGAAG	1 cut(s)	1068
EcoO109I	RGGNCCY	1 cut(s)	811
EcoRII	CCWGG	1 cut(s)	973
EcoT14I	CCWWGG	1 cut(s)	535
ErhI	CCWWGG	1 cut(s)	535
Esp3I	CGTCTC	1 cut(s)	410
FaeI	CATG	2 cut(s)	380, 764
FaqI	GGGAC	3 cut(s)	166, 805, 824
FatI	CATG	2 cut(s)	376, 760
FauI	CCCGC	2 cut(s)	149, 1085
FblI	GTMKAC	1 cut(s)	206
Fnu4HI	GCNGC	3 cut(s)	145, 921, 1156
FokI	GGATG	6 cut(s)	677, 694, 874, 914, 929, 971
Fsp4HI	GCNGC	3 cut(s)	145, 921, 1156
FspBI	CTAG	1 cut(s)	815
GluI	GCNGC	3 cut(s)	145, 921, 1156
GsaI	CCCAGC	1 cut(s)	792
GsuI	CTGGAG	2 cut(s)	89, 593
HaeIII	GGCC	1 cut(s)	939
HapII	CCGG	5 cut(s)	39, 86, 313, 1032, 1147
HgaI	GACGC	2 cut(s)	427, 1073
Hin1II	CATG	2 cut(s)	380, 764
HincII	GTYRAC	1 cut(s)	207
HindII	GTYRAC	1 cut(s)	207
HinfI	GANTC	4 cut(s)	176, 219, 695, 704
HpaII	CCGG	5 cut(s)	39, 86, 313, 1032, 1147
HphI	GGTGA	5 cut(s)	185, 328, 392, 401, 776
Hpy166II	GTNNAC	3 cut(s)	207, 310, 392
Hpy188I	TCNGA	9 cut(s)	227, 236, 276, 520, 596, 654, 743, 1014, 1056
Hpy188III	TCNNGA	8 cut(s)	86, 119, 133, 371, 617, 662, 876, 899
Hpy8I	GTNNAC	3 cut(s)	207, 310, 392
Hpy99I	CGWCG	5 cut(s)	101, 152, 208, 211, 227
HpyAV	CCTTC	2 cut(s)	380, 554
HpyCH4III	ACNGT	4 cut(s)	8, 173, 614, 949
HpyCH4IV	ACGT	3 cut(s)	203, 435, 444
HpyCH4V	TGCA	6 cut(s)	76, 188, 245, 342, 606, 676
HpyF10VI	GCNNNNNNNGC	4 cut(s)	73, 427, 1094, 1152
HpyF3I	CTNAG	4 cut(s)	395, 651, 702, 756
HpySE526I	ACGT	3 cut(s)	203, 435, 444
Hsp92II	CATG	2 cut(s)	380, 764
Kpn2I	TCCGGA	1 cut(s)	85
Kzo9I	GATC	5 cut(s)	121, 135, 231, 596, 925
LmnI	GCTCC	1 cut(s)	121
Lsp1109I	GCAGC	2 cut(s)	907, 1167
LweI	GCATC	4 cut(s)	544, 655, 907, 1047
MaeI	CTAG	1 cut(s)	815
MaeII	ACGT	3 cut(s)	203, 435, 444
MaeIII	GTNAC	3 cut(s)	316, 631, 641
MalI	GATC	5 cut(s)	123, 137, 233, 598, 927
MboI	GATC	5 cut(s)	121, 135, 231, 596, 925
MflI	RGATCY	1 cut(s)	596
MhlI	GDGCHC	1 cut(s)	871
MlsI	TGGCCA	1 cut(s)	939
MluCI	AATT	5 cut(s)	250, 481, 588, 737, 1110
MluNI	TGGCCA	1 cut(s)	939
MlyI	GAGTC	2 cut(s)	228, 713
MmeI	TCCRAC	1 cut(s)	205
MnlI	CCTC	6 cut(s)	340, 568, 672, 836, 948, 1050
Mox20I	TGGCCA	1 cut(s)	939
MroI	TCCGGA	1 cut(s)	85
MscI	TGGCCA	1 cut(s)	939
MseI	TTAA	2 cut(s)	494, 1017
MslI	CAYNNNNRTG	4 cut(s)	381, 468, 713, 765
Msp20I	TGGCCA	1 cut(s)	939
MspI	CCGG	5 cut(s)	39, 86, 313, 1032, 1147
MspR9I	CCNGG	2 cut(s)	314, 975
MvaI	CCWGG	1 cut(s)	975
MvnI	CGCG	1 cut(s)	147
MwoI	GCNNNNNNNGC	4 cut(s)	73, 427, 1094, 1152
NciI	CCSGG	1 cut(s)	314
NdeII	GATC	5 cut(s)	121, 135, 231, 596, 925
NlaIII	CATG	2 cut(s)	380, 764
NlaIV	GGNNCC	1 cut(s)	812
NmuCI	GTSAC	1 cut(s)	316
PcsI	WCGNNNNNNNCGW	4 cut(s)	117, 144, 156, 441
PfeI	GAWTC	2 cut(s)	176, 695
PinAI	ACCGGT	1 cut(s)	1031
PkrI	GCNGC	3 cut(s)	146, 922, 1157
PleI	GAGTC	2 cut(s)	227, 712
PpsI	GAGTC	2 cut(s)	227, 712
PpuMI	RGGWCCY	1 cut(s)	811
PshBI	ATTAAT	1 cut(s)	1017
Psp5II	RGGWCCY	1 cut(s)	811
Psp6I	CCWGG	1 cut(s)	973
PspFI	CCCAGC	1 cut(s)	788
PspGI	CCWGG	1 cut(s)	973
PspN4I	GGNNCC	1 cut(s)	812
PspPI	GGNCC	2 cut(s)	577, 811
PspPPI	RGGWCCY	1 cut(s)	811
PsrI	GAACNNNNNNTAC	2 cut(s)	616, 648
PsuI	RGATCY	1 cut(s)	596
RsaI	GTAC	3 cut(s)	969, 985, 1126
RsaNI	GTAC	3 cut(s)	968, 984, 1125
RseI	CAYNNNNRTG	4 cut(s)	381, 468, 713, 765
SalI	GTCGAC	1 cut(s)	205
SaqAI	TTAA	2 cut(s)	494, 1017
SatI	GCNGC	3 cut(s)	145, 921, 1156
Sau3AI	GATC	5 cut(s)	121, 135, 231, 596, 925
Sau96I	GGNCC	2 cut(s)	577, 811
ScaI	AGTACT	1 cut(s)	969
SchI	GAGTC	2 cut(s)	228, 713
ScrFI	CCNGG	2 cut(s)	314, 975
SduI	GDGCHC	1 cut(s)	871
SfaNI	GCATC	4 cut(s)	544, 655, 907, 1047
SgrDI	CGTCGACG	1 cut(s)	205
SinI	GGWCC	2 cut(s)	577, 811
SmiMI	CAYNNNNRTG	4 cut(s)	381, 468, 713, 765
SmlI	CTYRAG	2 cut(s)	369, 779
SmoI	CTYRAG	2 cut(s)	369, 779
Sse9I	AATT	5 cut(s)	250, 481, 588, 737, 1110
SsiI	CCGC	6 cut(s)	42, 142, 145, 164, 557, 1092
SspMI	CTAG	1 cut(s)	815
StyD4I	CCNGG	2 cut(s)	312, 973
StyI	CCWWGG	1 cut(s)	535
TaaI	ACNGT	4 cut(s)	8, 173, 614, 949
TaiI	ACGT	3 cut(s)	206, 438, 447
TaqI	TCGA	4 cut(s)	111, 159, 206, 618
TasI	AATT	5 cut(s)	250, 481, 588, 737, 1110
TatI	WGTACW	3 cut(s)	967, 983, 1124
TauI	GCSGC	1 cut(s)	147
TfiI	GAWTC	2 cut(s)	176, 695
Tru1I	TTAA	2 cut(s)	494, 1017
Tru9I	TTAA	2 cut(s)	494, 1017
TscAI	CASTG	2 cut(s)	940, 1165
TseFI	GTSAC	1 cut(s)	316
TseI	GCWGC	2 cut(s)	920, 1155
Tsp45I	GTSAC	1 cut(s)	316
TspDTI	ATGAA	5 cut(s)	21, 341, 399, 738, 998
TspGWI	ACGGA	1 cut(s)	183
TspRI	CASTG	2 cut(s)	940, 1165
VpaK11BI	GGWCC	2 cut(s)	577, 811
VspI	ATTAAT	1 cut(s)	1017
XapI	RAATTY	2 cut(s)	481, 737
XcmI	CCANNNNNNNNNTGG	1 cut(s)	467
XmiI	GTMKAC	1 cut(s)	206
XspI	CTAG	1 cut(s)	815
ZrmI	AGTACT	1 cut(s)	969

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