Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0006991

Physical Location & Seq

Genomic Coordinates Forward (+)

47624785 .. 47627916

Gene Structure 3132 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG357300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGGAAGTCCTCTCTCTTTGTATTCTTCGAAGAATAAATTGCTCGCCTTGTTTCCGGTATCGTTGGAGGTGTGATCAGTTGAATTTATCTCACTTATGCTTTGCTGATGATCTGCTAATGTTCTGTAATGGTGATGAAAATTCTGTTCTTACTCTCCATGATGCGCTCTCTAATTTTGAATCTTTATCTGGCCTAACTGCAAGTGTTTCTAAGAGTAAAATCTTTCTTTCTGGTGTGGATGTGAACTCAATTGAATCTATTCTTCAAATTATGAACTTCCATGTGGGGACTTGCCCTGTTCGTTACTTAGGTATTCCTCTAATTACTACCAAATTGAGAATGCAAGACTGCTCTCCCTTGATTGATCGAATAGAGGCTCGTAACAAAAGTTGGGAGAATAAGGTGCTCTCTTTCGCTGGAAGATTGCAACTTATTCAATCTGTTTTATCTAGCATCCAAGTGTACTGGGCGTCTCATGTAATTCTTCCCAAAAAAGTTCTCAAGGATATCGAAAAAAGGCTTCGTTGTTTTTTATGGGCTGGTAATTGCTCAGGTTCCTCCAACTTATGGATCAATTGGGTGAAAGTTTATTTACTAAGGAATAATTCTTTCTGGAATGCTCCTTATCCTGCCGTGTGTTCTTGGAATTGGAGAAAAATGCTTAAAATTAGGGAGCTTTGTCGATCTTTCTTTGCTAATATCATTGGTGATGGTCGTCCTACTTCTTTGTGGTTTGATAATTGGCACCCTCTTGGCCCTCTTACTCTTAGATGGTCATCTAATATCATTGCTGATTCTGCTCTCTCTACCTCTGCCATGGTCAGTGATGTTATCTATAATAATAATTGGACATGGCCTTCTCTCTCTCACGAGTTACTAGAGATTCGTGTTTCATTGACCCAAATCATTCCTAACTCTGAGGTTAGTGATTCTGTTCGATGGACTCTTTCTTCGAATGGGGTTTATTCAACTTCCTCTGCATGGAATGCCCTTCGTTTTTCTAGGCCTATTGTTCCTTGGTATCATTTAGTCTGGTTTGGTAGTTGTGTTCCTAGATGGAGCTTCATCTTATGGCTTGCTATTAGAGGAAGGTTATCAACTATGGATCGTGTAAGAATTTTTTTTCTCCTCTTGCTGCCCATGAATGTGCTTTTTGTCTTGCTGCTGATGAGTCTCACAACCATCTTTTCTTTGAGTGTGTTTATACCTCTGGCATTTGGACTCACATTTTGTCTAAATGTGATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04130 map04130

Pfam Domains

Protein Families

DUF4283 Exo_endo_phos RVT_1 zf-RVT

Protein Analysis

415

Amino Acids

47.71

Weight (kDa)

9.25

Isoelectric Point (pI)

43.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_1	PF00078	24 - 106	3.6e-06	Reverse transcriptase (RNA-dependent DNA polymerase)
zf-RVT	PF13966	322 - 372	1.6e-09	zinc-binding in reverse transcriptase

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)

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Publication-ready

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Orthologous Genes (Group: OG0006991)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G40390 AT1G43760
fragaria_vesca	FvH4_2g05581 FvH4_3g29012
rosa_laevigata	RLG00000017307
rosa_multiflora	Rmu_sc0000447.1_g000013 Rmu_sc0000647.1_g000017 Rmu_sc0001616.1_g000010 Rmu_sc0004932.1_g000002 Rmu_sc0032291.1_g000001 Rmu_sc0035385.1_g000001
rosa_roxburghii	Rroxscaffold_1G00031810
rosa_samantha	Rh3BG325500 Rh3BG325600 Rh3BG372000 Rh3BG372200 Rh4CG249400 Rh5CG378300 Rh6BG242500 Rh6CG069600 Rh6DG066600 Rh7CG451600 Rh7CG469200 Rh7DG357300
rosa_wichuraiana	Rw4G014200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	744
AccB7I	CCANNNNNTGG	1 cut(s)	567
AclWI	GGATC	2 cut(s)	578, 1113
AcsI	RAATTY	3 cut(s)	82, 139, 1116
AcyI	GRCGYC	1 cut(s)	470
AfaI	GTAC	1 cut(s)	464
AfiI	CCNNNNNNNGG	2 cut(s)	567, 981
AgsI	TTSAA	6 cut(s)	82, 179, 254, 266, 437, 969
AluBI	AGCT	2 cut(s)	676, 1062
AluI	AGCT	2 cut(s)	676, 1062
Alw21I	GWGCWC	1 cut(s)	408
Alw26I	GTCTC	2 cut(s)	477, 1178
AlwI	GGATC	2 cut(s)	578, 1113
AoxI	GGCC	4 cut(s)	190, 754, 854, 1004
ApeKI	GCWGC	2 cut(s)	1135, 1162
ApoI	RAATTY	3 cut(s)	82, 139, 1116
ArsI	GACNNNNNNTTYG	4 cut(s)	934, 966, 1212, 1244
Asp700I	GAANNNNTTC	1 cut(s)	258
AspLEI	GCGC	1 cut(s)	166
AspS9I	GGNCC	1 cut(s)	755
AsuHPI	GGTGA	3 cut(s)	143, 592, 719
AsuII	TTCGAA	2 cut(s)	28, 953
BanI	GGYRCC	1 cut(s)	744
BauI	CACGAG	1 cut(s)	869
Bbv12I	GWGCWC	1 cut(s)	408
BbvI	GCAGC	2 cut(s)	1122, 1149
BccI	CCATC	5 cut(s)	704, 765, 933, 1050, 1190
BceAI	ACGGC	1 cut(s)	617
BclI	TGATCA	1 cut(s)	73
BcoDI	GTCTC	2 cut(s)	477, 1178
BfaI	CTAG	4 cut(s)	450, 878, 1002, 1053
BisI	GCNGC	2 cut(s)	1136, 1163
BlsI	GCNGC	2 cut(s)	1137, 1164
BmgT120I	GGNCC	1 cut(s)	755
BmiI	GGNNCC	2 cut(s)	556, 746
BmrI	ACTGGG	1 cut(s)	475
BmsI	GCATC	2 cut(s)	151, 462
BmuI	ACTGGG	1 cut(s)	475
Bpu10I	CCTNAGC	1 cut(s)	550
Bpu14I	TTCGAA	2 cut(s)	28, 953
BpuEI	CTTGAG	1 cut(s)	485
BsaBI	GATNNNNATC	1 cut(s)	775
BsaHI	GRCGYC	1 cut(s)	470
BsaJI	CCNNGG	2 cut(s)	816, 1016
BsaWI	WCCGGW	1 cut(s)	54
Bsc4I	CCNNNNNNNGG	2 cut(s)	567, 981
Bse1I	ACTGG	1 cut(s)	470
Bse3DI	GCAATG	1 cut(s)	786
Bse8I	GATNNNNATC	1 cut(s)	775
BseDI	CCNNGG	2 cut(s)	816, 1016
BseGI	GGATG	2 cut(s)	244, 453
BseJI	GATNNNNATC	1 cut(s)	775
BseLI	CCNNNNNNNGG	2 cut(s)	567, 981
BseMI	GCAATG	1 cut(s)	786
BseMII	CTCAG	2 cut(s)	564, 909
BseNI	ACTGG	1 cut(s)	470
BseRI	GAGGAG	1 cut(s)	1118
BseXI	GCAGC	2 cut(s)	1122, 1149
BshFI	GGCC	4 cut(s)	192, 756, 856, 1006
BshNI	GGYRCC	1 cut(s)	744
BsiHKAI	GWGCWC	1 cut(s)	408
BsiSI	CCGG	1 cut(s)	55
BslFI	GGGAC	1 cut(s)	301
BslI	CCNNNNNNNGG	2 cut(s)	567, 981
BsmAI	GTCTC	2 cut(s)	477, 1178
BsmBI	CGTCTC	1 cut(s)	477
BsmFI	GGGAC	1 cut(s)	301
BsmI	GAATGC	3 cut(s)	345, 622, 991
BsnI	GGCC	4 cut(s)	192, 756, 856, 1006
Bsp119I	TTCGAA	2 cut(s)	28, 953
Bsp1286I	GDGCHC	1 cut(s)	408
Bsp143I	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
Bsp19I	CCATGG	1 cut(s)	816
BspANI	GGCC	4 cut(s)	192, 756, 856, 1006
BspCNI	CTCAG	2 cut(s)	563, 910
BspLI	GGNNCC	2 cut(s)	556, 746
BspPI	GGATC	2 cut(s)	578, 1113
BspT104I	TTCGAA	2 cut(s)	28, 953
BspT107I	GGYRCC	1 cut(s)	744
BsrDI	GCAATG	1 cut(s)	786
BsrI	ACTGG	1 cut(s)	470
BssECI	CCNNGG	2 cut(s)	816, 1016
BssMI	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
BssNI	GRCGYC	1 cut(s)	470
BssSI	CACGAG	1 cut(s)	869
BssT1I	CCWWGG	2 cut(s)	816, 1016
Bst2BI	CACGAG	1 cut(s)	869
BstACI	GRCGYC	1 cut(s)	470
BstAPI	GCANNNNNTGC	1 cut(s)	986
BstBI	TTCGAA	2 cut(s)	28, 953
BstC8I	GCNNGC	2 cut(s)	44, 1077
BstDEI	CTNAG	6 cut(s)	210, 307, 550, 596, 767, 918
BstDSI	CCRYGG	1 cut(s)	816
BstF5I	GGATG	2 cut(s)	244, 453
BstHHI	GCGC	1 cut(s)	166
BstKTI	GATC	6 cut(s)	76, 112, 367, 573, 686, 1108
BstMAI	GTCTC	2 cut(s)	477, 1178
BstMBI	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
BstMWI	GCNNNNNNNGC	2 cut(s)	797, 986
BstV1I	GCAGC	2 cut(s)	1122, 1149
BsuRI	GGCC	4 cut(s)	192, 756, 856, 1006
BtgI	CCRYGG	1 cut(s)	816
BtsCI	GGATG	2 cut(s)	244, 453
BtsIMutI	CAGTG	1 cut(s)	829
Cac8I	GCNNGC	2 cut(s)	44, 1077
CfoI	GCGC	1 cut(s)	166
Cfr13I	GGNCC	1 cut(s)	755
CseI	GACGC	1 cut(s)	459
Csp6I	GTAC	1 cut(s)	463
CviAII	CATG	7 cut(s)	158, 281, 476, 817, 852, 981, 1141
CviQI	GTAC	1 cut(s)	463
DdeI	CTNAG	6 cut(s)	210, 307, 550, 596, 767, 918
DpnI	GATC	6 cut(s)	75, 111, 366, 572, 685, 1107
DpnII	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
Eco130I	CCWWGG	2 cut(s)	816, 1016
Eco147I	AGGCCT	1 cut(s)	1006
Eco32I	GATATC	1 cut(s)	508
EcoRV	GATATC	1 cut(s)	508
EcoT14I	CCWWGG	2 cut(s)	816, 1016
ErhI	CCWWGG	2 cut(s)	816, 1016
Esp3I	CGTCTC	1 cut(s)	477
FaeI	CATG	7 cut(s)	161, 284, 479, 820, 855, 984, 1144
FaqI	GGGAC	1 cut(s)	301
FatI	CATG	7 cut(s)	157, 280, 475, 816, 851, 980, 1140
FbaI	TGATCA	1 cut(s)	73
Fnu4HI	GCNGC	2 cut(s)	1136, 1163
FokI	GGATG	2 cut(s)	251, 440
Fsp4HI	GCNGC	2 cut(s)	1136, 1163
FspBI	CTAG	4 cut(s)	450, 878, 1002, 1053
GlaI	GCGC	1 cut(s)	165
GluI	GCNGC	2 cut(s)	1136, 1163
HaeIII	GGCC	4 cut(s)	192, 756, 856, 1006
HapII	CCGG	1 cut(s)	55
HgaI	GACGC	1 cut(s)	459
HhaI	GCGC	1 cut(s)	166
Hin1I	GRCGYC	1 cut(s)	470
Hin1II	CATG	7 cut(s)	161, 284, 479, 820, 855, 984, 1144
Hin6I	GCGC	1 cut(s)	164
HinP1I	GCGC	1 cut(s)	164
HinfI	GANTC	8 cut(s)	179, 254, 794, 883, 929, 943, 1171, 1221
HpaII	CCGG	1 cut(s)	55
HphI	GGTGA	3 cut(s)	143, 592, 719
Hpy166II	GTNNAC	2 cut(s)	244, 463
Hpy188I	TCNGA	1 cut(s)	919
Hpy188III	TCNNGA	2 cut(s)	613, 869
Hpy8I	GTNNAC	2 cut(s)	244, 463
HpyAV	CCTTC	3 cut(s)	867, 1001, 1083
HpyCH4V	TGCA	4 cut(s)	200, 343, 427, 980
HpyF10VI	GCNNNNNNNGC	2 cut(s)	797, 986
HpyF3I	CTNAG	6 cut(s)	210, 307, 550, 596, 767, 918
Hsp92I	GRCGYC	1 cut(s)	470
Hsp92II	CATG	7 cut(s)	161, 284, 479, 820, 855, 984, 1144
HspAI	GCGC	1 cut(s)	164
Ksp22I	TGATCA	1 cut(s)	73
Kzo9I	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
LmnI	GCTCC	3 cut(s)	625, 673, 1059
Lsp1109I	GCAGC	2 cut(s)	1122, 1149
LweI	GCATC	2 cut(s)	151, 462
MaeI	CTAG	4 cut(s)	450, 878, 1002, 1053
MaeIII	GTNAC	3 cut(s)	302, 380, 873
MalI	GATC	6 cut(s)	75, 111, 366, 572, 685, 1107
MboI	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
MboII	GAAGA	6 cut(s)	17, 42, 254, 432, 476, 942
MfeI	CAATTG	2 cut(s)	249, 574
MhlI	GDGCHC	1 cut(s)	408
MlyI	GAGTC	3 cut(s)	937, 1180, 1215
MmeI	TCCRAC	2 cut(s)	44, 585
MroXI	GAANNNNTTC	1 cut(s)	258
MseI	TTAA	1 cut(s)	663
MslI	CAYNNNNRTG	2 cut(s)	458, 1145
MspI	CCGG	1 cut(s)	55
MunI	CAATTG	2 cut(s)	249, 574
Mva1269I	GAATGC	3 cut(s)	345, 622, 991
MwoI	GCNNNNNNNGC	2 cut(s)	797, 986
NcoI	CCATGG	1 cut(s)	816
NdeII	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
NlaIII	CATG	7 cut(s)	161, 284, 479, 820, 855, 984, 1144
NlaIV	GGNNCC	2 cut(s)	556, 746
NspV	TTCGAA	2 cut(s)	28, 953
PceI	AGGCCT	1 cut(s)	1006
PctI	GAATGC	3 cut(s)	345, 622, 991
PdmI	GAANNNNTTC	1 cut(s)	258
PfeI	GAWTC	5 cut(s)	179, 254, 794, 883, 929
PflMI	CCANNNNNTGG	1 cut(s)	567
PkrI	GCNGC	2 cut(s)	1137, 1164
PleI	GAGTC	3 cut(s)	937, 1179, 1215
PpsI	GAGTC	3 cut(s)	937, 1179, 1215
PspN4I	GGNNCC	2 cut(s)	556, 746
PspPI	GGNCC	1 cut(s)	755
RsaI	GTAC	1 cut(s)	464
RsaNI	GTAC	1 cut(s)	463
RseI	CAYNNNNRTG	2 cut(s)	458, 1145
SaqAI	TTAA	1 cut(s)	663
SatI	GCNGC	2 cut(s)	1136, 1163
Sau3AI	GATC	6 cut(s)	73, 109, 364, 570, 683, 1105
Sau96I	GGNCC	1 cut(s)	755
SchI	GAGTC	3 cut(s)	937, 1180, 1215
SduI	GDGCHC	1 cut(s)	408
SfaNI	GCATC	2 cut(s)	151, 462
SfuI	TTCGAA	2 cut(s)	28, 953
SmiMI	CAYNNNNRTG	2 cut(s)	458, 1145
SmlI	CTYRAG	1 cut(s)	500
SmoI	CTYRAG	1 cut(s)	500
SseBI	AGGCCT	1 cut(s)	1006
SspMI	CTAG	4 cut(s)	450, 878, 1002, 1053
StuI	AGGCCT	1 cut(s)	1006
StyI	CCWWGG	2 cut(s)	816, 1016
TaqI	TCGA	6 cut(s)	28, 367, 510, 682, 937, 953
TatI	WGTACW	1 cut(s)	462
TfiI	GAWTC	5 cut(s)	179, 254, 794, 883, 929
Tru1I	TTAA	1 cut(s)	663
Tru9I	TTAA	1 cut(s)	663
TscAI	CASTG	1 cut(s)	829
TseI	GCWGC	2 cut(s)	1135, 1162
TspDTI	ATGAA	5 cut(s)	150, 287, 882, 1054, 1157
TspRI	CASTG	1 cut(s)	829
Van91I	CCANNNNNTGG	1 cut(s)	567
XapI	RAATTY	3 cut(s)	82, 139, 1116
XmnI	GAANNNNTTC	1 cut(s)	258
XspI	CTAG	4 cut(s)	450, 878, 1002, 1053

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