Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0008619

Physical Location & Seq

Genomic Coordinates Reverse (-)

53854984 .. 53873961

Gene Structure 18978 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG333700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1200 bp

ATGGCTGCTGGGCGAGGAGGTGCTGCTCAAGGAGGCAACAACGCCTTGGAGACCAATCAAGTAGCTGCTGGTAATGTGGTAACAAGGGAGGATCTGGAAAACTTGCAACAACAACAAAGGCAACTGCAAGATCAAATTACTCAGCTGTGTACGAGGCTAGAGCAGTCAGGTGTTCTGACTCCTCAAGACCAGAATCCGGAGAGGCAAAGAGGTCCCCAAATGAATGTATACCAAAGGAGGAACATGAGGAATCGACCAGCATTTGAAAGGTACCAACAGCAACCTTTAGAGAGTGATTCTTTAGATGAAGAAGAAGCTGGTGTCTTGTTCCAACAATATCAATCGATCCAGCAAGATAATCGATCTGTTCGAGAGTATACAAATGAGTTCTACAAAATGAGAACTCGAGTTCAGCTGCCAGAGACAGAGATTCAAGTCACTCACCGCTATCTGATGGGTCTAAGGTCGAGTATTAGAAATATGGTCGAGCTACAACCTTGCTGGTCATTAGCAACGGCTGTTCAACTCGCCATGAAGGTGGAAGCCCAGCAAAAGTCAGCTAACCATCGGTCAAGTCAGTTTGGGAAGAGACAAACGCAGTTAGAAGCTGAACCAGTCCAAGGAAATGCAAAGCTGAAACTTGGAGCTGCCTCCAACAATCTCCAGAACAATAAGGCAGCATCGAATTCTCAAGGGGGGCAAGTTCGTGGACGTGGAATGGGAAGTGATGCAGCTAGAAGCAGCAACATAACCTCTCAATTCGTAGGAGGGAAGGTGATCTGTTACAAGTGTGGACAAAAGGGGCACAAATCTTCCGAGTGTAGGAAGACATCTAGCAGCCTACTTGTTAGTGAAGACGGAGAGGTCAACAATGAAGATGGACAATTCCATGAAAGCCTTCTGGAATTTACAGAAGACGAAGTCACATATGAAGATCAAGATCTTCCCAATCTGGTAGCATCTCTTCTCCTCCAATGGCTTCTCACATGCATTGCACATTTTCAAACTGTGTTCGTCGATCAAGTGTTTCAAAAGATTCAGCACCTCACGGTTGCAATTAGGGTAGCGCACAATCAAATCGTTCTCCATATTGATGACTGGAATTGCAAGAAGATGACTAAAATCACAGAGAAAACGCTGGAATTGCAAAGTAAGAAGATGACTGGTATCGTAACCGCCTCTTCTAACTCAAGTCTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Retrotrans_gag gag-asp_proteas zf-CCHC

Protein Analysis

399

Amino Acids

44.88

Weight (kDa)

7.08

Isoelectric Point (pI)

53.25

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0008619)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63150
fragaria_vesca	FvH4_5g06710
malus_domestica	MD02G1049300.v1.1 MD06G1161600.v1.1 MD14G1167200.v1.1
prunus_persica	Prupe.3G296000_v2.0.a1 Prupe.5G161500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr7g0191931
rosa_laevigata	RLG00000004417
rosa_multiflora	Rmu_sc0018275.1_g000002 Rmu_ssc0000421.1_g000016
rosa_roxburghii	Rroxscaffold_153G00436790 Rroxscaffold_2G00104870
rosa_rugosa	Rorug06G0511800
rosa_samantha	Rh4CG099700 Rh4CG149200 Rh6DG182200 Rh6DG333700 Rh7AG122000 Rh7CG126200
rosa_wichuraiana	Rw5G016780 Rw5G034310 Rw6G009920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	863
Acc65I	GGTACC	1 cut(s)	270
AccB1I	GGYRCC	1 cut(s)	270
AccI	GTMKAC	2 cut(s)	228, 377
AccIII	TCCGGA	1 cut(s)	196
AciI	CCGC	2 cut(s)	445, 1176
AclWI	GGATC	2 cut(s)	99, 340
AcsI	RAATTY	2 cut(s)	685, 905
AfaI	GTAC	2 cut(s)	151, 272
AfiI	CCNNNNNNNGG	3 cut(s)	196, 620, 822
AgsI	TTSAA	5 cut(s)	266, 434, 524, 1004, 1031
AjiI	CACGTC	1 cut(s)	713
Alw26I	GTCTC	3 cut(s)	44, 416, 583
AlwI	GGATC	2 cut(s)	99, 340
Ama87I	CYCGRG	1 cut(s)	405
Aor13HI	TCCGGA	1 cut(s)	196
ApeKI	GCWGC	9 cut(s)	5, 23, 65, 415, 647, 677, 731, 741, 837
ApoI	RAATTY	2 cut(s)	685, 905
Asp700I	GAANNNNTTC	1 cut(s)	897
Asp718I	GGTACC	1 cut(s)	270
AspLEI	GCGC	1 cut(s)	1069
AspS9I	GGNCC	1 cut(s)	212
AsuHPI	GGTGA	2 cut(s)	434, 787
AvaI	CYCGRG	1 cut(s)	405
AvaII	GGWCC	1 cut(s)	212
BaeGI	GKGCMC	1 cut(s)	807
BanI	GGYRCC	1 cut(s)	270
BarI	GAAGNNNNNNTAC	2 cut(s)	948, 980
BbsI	GAAGAC	3 cut(s)	833, 861, 921
BbvI	GCAGC	8 cut(s)	10, 52, 402, 634, 689, 743, 753, 849
BccI	CCATC	3 cut(s)	448, 573, 872
BceAI	ACGGC	1 cut(s)	531
BcgI	CGANNNNNNTGC	2 cut(s)	341, 375
BcoDI	GTCTC	3 cut(s)	44, 416, 583
BfaI	CTAG	3 cut(s)	158, 735, 834
BglII	AGATCT	1 cut(s)	940
BisI	GCNGC	9 cut(s)	6, 24, 66, 416, 648, 678, 732, 742, 838
BlsI	GCNGC	9 cut(s)	7, 25, 67, 417, 649, 679, 733, 743, 839
Bme18I	GGWCC	1 cut(s)	212
BmeT110I	CYCGRG	1 cut(s)	405
BmgBI	CACGTC	1 cut(s)	713
BmgT120I	GGNCC	1 cut(s)	212
BmiI	GGNNCC	2 cut(s)	214, 272
BmsI	GCATC	3 cut(s)	689, 718, 968
BpiI	GAAGAC	3 cut(s)	833, 861, 921
BpmI	CTGGAG	1 cut(s)	647
BpuEI	CTTGAG	4 cut(s)	12, 168, 675, 1174
Bsa29I	ATCGAT	2 cut(s)	344, 361
BsaBI	GATNNNNATC	1 cut(s)	939
BsaI	GGTCTC	1 cut(s)	44
BsaJI	CCNNGG	2 cut(s)	45, 619
BsaWI	WCCGGW	1 cut(s)	196
BsaXI	ACNNNNNCTCC	2 cut(s)	759, 789
Bsc4I	CCNNNNNNNGG	3 cut(s)	196, 620, 822
Bse1I	ACTGG	3 cut(s)	614, 1103, 1168
Bse3DI	GCAATG	1 cut(s)	990
Bse8I	GATNNNNATC	1 cut(s)	939
BseAI	TCCGGA	1 cut(s)	196
BseCI	ATCGAT	2 cut(s)	344, 361
BseDI	CCNNGG	2 cut(s)	45, 619
BseJI	GATNNNNATC	1 cut(s)	939
BseLI	CCNNNNNNNGG	3 cut(s)	196, 620, 822
BseMI	GCAATG	1 cut(s)	990
BseMII	CTCAG	1 cut(s)	155
BseNI	ACTGG	3 cut(s)	614, 1103, 1168
BseRI	GAGGAG	3 cut(s)	30, 171, 959
BseSI	GKGCMC	1 cut(s)	807
BseXI	GCAGC	8 cut(s)	10, 52, 402, 634, 689, 743, 753, 849
BseYI	CCCAGC	2 cut(s)	8, 546
BshNI	GGYRCC	1 cut(s)	270
BshVI	ATCGAT	2 cut(s)	344, 361
BsiHKCI	CYCGRG	1 cut(s)	405
BsiSI	CCGG	1 cut(s)	197
BslFI	GGGAC	1 cut(s)	198
BslI	CCNNNNNNNGG	3 cut(s)	196, 620, 822
BsmAI	GTCTC	3 cut(s)	44, 416, 583
BsmFI	GGGAC	1 cut(s)	198
Bso31I	GGTCTC	1 cut(s)	44
BsoBI	CYCGRG	1 cut(s)	405
Bsp1286I	GDGCHC	1 cut(s)	807
Bsp13I	TCCGGA	1 cut(s)	196
Bsp143I	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
BspACI	CCGC	2 cut(s)	445, 1176
BspCNI	CTCAG	1 cut(s)	154
BspDI	ATCGAT	2 cut(s)	344, 361
BspEI	TCCGGA	1 cut(s)	196
BspLI	GGNNCC	2 cut(s)	214, 272
BspPI	GGATC	2 cut(s)	99, 340
BspT107I	GGYRCC	1 cut(s)	270
BspTNI	GGTCTC	1 cut(s)	44
BsrDI	GCAATG	1 cut(s)	990
BsrI	ACTGG	3 cut(s)	614, 1103, 1168
BssECI	CCNNGG	2 cut(s)	45, 619
BssMI	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
BssNAI	GTATAC	2 cut(s)	229, 378
BssT1I	CCWWGG	2 cut(s)	45, 619
Bst1107I	GTATAC	2 cut(s)	229, 378
Bst4CI	ACNGT	2 cut(s)	1009, 1051
Bst6I	CTCTTC	3 cut(s)	581, 969, 1186
BstDEI	CTNAG	2 cut(s)	141, 461
BstHHI	GCGC	1 cut(s)	1069
BstKTI	GATC	8 cut(s)	94, 133, 348, 365, 780, 937, 943, 1021
BstMAI	GTCTC	3 cut(s)	44, 416, 583
BstMBI	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
BstMWI	GCNNNNNNNGC	1 cut(s)	1144
BstNSI	RCATGY	1 cut(s)	990
BstSLI	GKGCMC	1 cut(s)	807
BstV1I	GCAGC	8 cut(s)	10, 52, 402, 634, 689, 743, 753, 849
BstV2I	GAAGAC	3 cut(s)	833, 861, 921
BstX2I	RGATCY	2 cut(s)	91, 940
BstXI	CCANNNNNNTGG	1 cut(s)	538
BstYI	RGATCY	2 cut(s)	91, 940
BstZ17I	GTATAC	2 cut(s)	229, 378
Bsu15I	ATCGAT	2 cut(s)	344, 361
BsuTUI	ATCGAT	2 cut(s)	344, 361
BtrI	CACGTC	1 cut(s)	713
CfoI	GCGC	1 cut(s)	1069
Cfr13I	GGNCC	1 cut(s)	212
ClaI	ATCGAT	2 cut(s)	344, 361
Csp6I	GTAC	2 cut(s)	150, 271
CviAII	CATG	4 cut(s)	244, 532, 890, 987
CviQI	GTAC	2 cut(s)	150, 271
DdeI	CTNAG	2 cut(s)	141, 461
DpnI	GATC	8 cut(s)	93, 132, 347, 364, 779, 936, 942, 1020
DpnII	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
DrdI	GACNNNNNNGTC	1 cut(s)	863
DseDI	GACNNNNNNGTC	1 cut(s)	863
Eam1104I	CTCTTC	3 cut(s)	581, 969, 1186
EarI	CTCTTC	3 cut(s)	581, 969, 1186
Eco130I	CCWWGG	2 cut(s)	45, 619
Eco31I	GGTCTC	1 cut(s)	44
Eco47I	GGWCC	1 cut(s)	212
Eco88I	CYCGRG	1 cut(s)	405
EcoO109I	RGGNCCY	1 cut(s)	212
EcoRI	GAATTC	1 cut(s)	685
EcoT14I	CCWWGG	2 cut(s)	45, 619
EcoT22I	ATGCAT	1 cut(s)	992
ErhI	CCWWGG	2 cut(s)	45, 619
FaeI	CATG	4 cut(s)	247, 535, 893, 990
FaqI	GGGAC	1 cut(s)	198
FatI	CATG	4 cut(s)	243, 531, 889, 986
FauNDI	CATATG	1 cut(s)	928
FblI	GTMKAC	2 cut(s)	228, 377
Fnu4HI	GCNGC	9 cut(s)	6, 24, 66, 416, 648, 678, 732, 742, 838
Fsp4HI	GCNGC	9 cut(s)	6, 24, 66, 416, 648, 678, 732, 742, 838
FspBI	CTAG	3 cut(s)	158, 735, 834
GlaI	GCGC	1 cut(s)	1068
GluI	GCNGC	9 cut(s)	6, 24, 66, 416, 648, 678, 732, 742, 838
GsaI	CCCAGC	2 cut(s)	12, 550
GsuI	CTGGAG	1 cut(s)	647
HapII	CCGG	1 cut(s)	197
HhaI	GCGC	1 cut(s)	1069
Hin1II	CATG	4 cut(s)	247, 535, 893, 990
Hin6I	GCGC	1 cut(s)	1067
HinP1I	GCGC	1 cut(s)	1067
HincII	GTYRAC	1 cut(s)	868
HindII	GTYRAC	1 cut(s)	868
HinfI	GANTC	6 cut(s)	178, 193, 250, 296, 430, 1036
HpaII	CCGG	1 cut(s)	197
HphI	GGTGA	2 cut(s)	434, 787
Hpy166II	GTNNAC	6 cut(s)	150, 229, 378, 710, 794, 868
Hpy188I	TCNGA	3 cut(s)	177, 453, 817
Hpy188III	TCNNGA	7 cut(s)	95, 185, 197, 371, 664, 902, 938
Hpy8I	GTNNAC	6 cut(s)	150, 229, 378, 710, 794, 868
Hpy99I	CGWCG	1 cut(s)	1019
HpyAV	CCTTC	3 cut(s)	529, 766, 908
HpyCH4III	ACNGT	2 cut(s)	1009, 1051
HpyCH4IV	ACGT	1 cut(s)	712
HpyCH4V	TGCA	9 cut(s)	106, 127, 629, 731, 990, 995, 1055, 1107, 1147
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1144
HpyF3I	CTNAG	2 cut(s)	141, 461
HpySE526I	ACGT	1 cut(s)	712
Hsp92II	CATG	4 cut(s)	247, 535, 893, 990
HspAI	GCGC	1 cut(s)	1067
Kpn2I	TCCGGA	1 cut(s)	196
KpnI	GGTACC	1 cut(s)	274
Kzo9I	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
LmnI	GCTCC	1 cut(s)	644
Lsp1109I	GCAGC	8 cut(s)	10, 52, 402, 634, 689, 743, 753, 849
LweI	GCATC	3 cut(s)	689, 718, 968
MaeI	CTAG	3 cut(s)	158, 735, 834
MaeII	ACGT	1 cut(s)	712
MaeIII	GTNAC	5 cut(s)	79, 436, 782, 922, 1171
MalI	GATC	8 cut(s)	93, 132, 347, 364, 779, 936, 942, 1020
MboI	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
MflI	RGATCY	2 cut(s)	91, 940
MhlI	GDGCHC	1 cut(s)	807
MluCI	AATT	8 cut(s)	135, 685, 758, 884, 905, 1056, 1102, 1142
MlyI	GAGTC	1 cut(s)	172
MmeI	TCCRAC	2 cut(s)	355, 678
Mph1103I	ATGCAT	1 cut(s)	992
MroI	TCCGGA	1 cut(s)	196
MroXI	GAANNNNTTC	1 cut(s)	897
MslI	CAYNNNNRTG	2 cut(s)	536, 1092
MspA1I	CMGCKG	2 cut(s)	145, 415
MspI	CCGG	1 cut(s)	197
MwoI	GCNNNNNNNGC	1 cut(s)	1144
NdeI	CATATG	1 cut(s)	928
NdeII	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
NlaIII	CATG	4 cut(s)	247, 535, 893, 990
NlaIV	GGNNCC	2 cut(s)	214, 272
NmuCI	GTSAC	2 cut(s)	436, 922
NsiI	ATGCAT	1 cut(s)	992
NspI	RCATGY	1 cut(s)	990
PaeR7I	CTCGAG	1 cut(s)	405
PcsI	WCGNNNNNNNCGW	1 cut(s)	367
PdmI	GAANNNNTTC	1 cut(s)	897
PfeI	GAWTC	5 cut(s)	193, 250, 296, 430, 1036
PflFI	GACNNNGTC	1 cut(s)	920
PkrI	GCNGC	9 cut(s)	7, 25, 67, 417, 649, 679, 733, 743, 839
PleI	GAGTC	1 cut(s)	172
PpsI	GAGTC	1 cut(s)	172
PpuMI	RGGWCCY	1 cut(s)	212
Psp5II	RGGWCCY	1 cut(s)	212
PspFI	CCCAGC	2 cut(s)	8, 546
PspN4I	GGNNCC	2 cut(s)	214, 272
PspPI	GGNCC	1 cut(s)	212
PspPPI	RGGWCCY	1 cut(s)	212
PspXI	VCTCGAGB	1 cut(s)	405
PsuI	RGATCY	2 cut(s)	91, 940
PsyI	GACNNNGTC	1 cut(s)	920
PvuII	CAGCTG	2 cut(s)	145, 415
RsaI	GTAC	2 cut(s)	151, 272
RsaNI	GTAC	2 cut(s)	150, 271
RseI	CAYNNNNRTG	2 cut(s)	536, 1092
SatI	GCNGC	9 cut(s)	6, 24, 66, 416, 648, 678, 732, 742, 838
Sau3AI	GATC	8 cut(s)	91, 130, 345, 362, 777, 934, 940, 1018
Sau96I	GGNCC	1 cut(s)	212
SchI	GAGTC	1 cut(s)	172
SduI	GDGCHC	1 cut(s)	807
SfaNI	GCATC	3 cut(s)	689, 718, 968
Sfr274I	CTCGAG	1 cut(s)	405
SinI	GGWCC	1 cut(s)	212
SlaI	CTCGAG	1 cut(s)	405
SmiMI	CAYNNNNRTG	2 cut(s)	536, 1092
SmlI	CTYRAG	5 cut(s)	27, 183, 405, 690, 1189
SmoI	CTYRAG	5 cut(s)	27, 183, 405, 690, 1189
Sse9I	AATT	8 cut(s)	135, 685, 758, 884, 905, 1056, 1102, 1142
SsiI	CCGC	2 cut(s)	445, 1176
SspMI	CTAG	3 cut(s)	158, 735, 834
StyI	CCWWGG	2 cut(s)	45, 619
TaaI	ACNGT	2 cut(s)	1009, 1051
TaiI	ACGT	1 cut(s)	715
TaqI	TCGA	9 cut(s)	253, 344, 361, 370, 406, 467, 486, 683, 1017
TaqII	GACCGA	1 cut(s)	558
TasI	AATT	8 cut(s)	135, 685, 758, 884, 905, 1056, 1102, 1142
TfiI	GAWTC	5 cut(s)	193, 250, 296, 430, 1036
TseFI	GTSAC	2 cut(s)	436, 922
TseI	GCWGC	9 cut(s)	5, 23, 65, 415, 647, 677, 731, 741, 837
Tsp45I	GTSAC	2 cut(s)	436, 922
TspDTI	ATGAA	6 cut(s)	236, 321, 548, 888, 906, 945
TspGWI	ACGGA	1 cut(s)	873
Tth111I	GACNNNGTC	1 cut(s)	920
VpaK11BI	GGWCC	1 cut(s)	212
XapI	RAATTY	2 cut(s)	685, 905
XceI	RCATGY	1 cut(s)	990
XhoI	CTCGAG	1 cut(s)	405
XmiI	GTMKAC	2 cut(s)	228, 377
XmnI	GAANNNNTTC	1 cut(s)	897
XspI	CTAG	3 cut(s)	158, 735, 834
Zsp2I	ATGCAT	1 cut(s)	992

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