Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0001033

Physical Location & Seq

Genomic Coordinates Reverse (-)

17524174 .. 17525352

Gene Structure 1179 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG208300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1179 bp

ATGAATAAGCTCTCGAAAACCGAGCTCACAAAACAACTCAATGATTTTATTCAGTCTTCTACTGCTAATAGCGGCAAAGCGAAGCTGGTCCTCAAGAACAATCGGTACTTTGTGGAATCTACATTCCCGGAGGTACTGAACACATTGCTTGAGGATAAACTTATATCTGAAGCAAAAATTAGTAGTATAACAAATAATGGCAAAGAATTCGAAATTGATCCTAACAAGGTTGAAGACATCATGAAACGTTGCTCGCAAGATGGTTTGAACTATCCCATGGTGGAGGAGTACGACTATAGAAACGATAATGTAAACCCCAATGTTGGTATGGAACTAAAGCCCCAAGCACGCGCGACGATACGACCATATCAGCTTAAGAGCTTGAGCACAATGTTTGGTAATGGTAGAGCGAGATCTGGTATAATTGTACTACCTTGCGGCGCAGGAAAATCCCTAGTTGGTGTTTCTGCAGCCTCCACAATAGGAAAGAGCTGCCTTTGTTTAGCAACGAATGGTGTTTCAGTTGATCAGTGGGTCTATCAGTTCAAGTTGTGGTCAACCATTCGAGATGAACAGATTTGTCGTTTCAAATCTGACTGTAAAGAAGAAGCTGCAGAGATGTTAATCCGCCGCAAAAGCAATGCTGCTGGGGTGGTGGTTGTGACTACATATAGCATGCTTGGCTGTGGTGGCAATAGGTCCCAACAGTCTAAAAACATTATTGAGGAAATAAAAAATAGAGAATGGGGGTTGATTCTCATGGATGAGGTTCATGTAACTCCTGCTGAATCGTTTCGAAATGTCATCCGAATCACCAAATCACACTGCAAGCTTGGCCTCACGGCGACGCTCTTGAGAGAAGATGACAAGATATCAGATCTCAACTTCCTCATTGGACACAAATTATATGAAGCAAACTGGTTGGATTTGGCGAAACGAGGATACATTGCAAATGTGCTGTGCGCTGAAGTAAGGTGTCAGATGACAAAGGAGTTCTTTGCCGAGTATAAGAAAGAAAACTCCTACGAAAGAAAGCAAGCACTTTATTTGATGAATCCAAACAAGTTTAGGATATGCGAGTATCTTATACAGTTTCATGAGCAGCAGCGCCGTGGTGATAAGATCATAGTCTTTTCCGACAACCTCTTCACCCTCACTGAATATGCCACCAAGCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0008150 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0010224 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050896

KEGG Pathways

Metabolic & Signaling

ko03022 ko03420 map03022 map03420

Pfam Domains

Protein Families

ERCC3_RAD25_C Helicase_C_3 ResIII

Protein Analysis

392

Amino Acids

44.65

Weight (kDa)

8.8

Isoelectric Point (pI)

30.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C_3	PF13625	2 - 62	7.3e-07	Helicase conserved C-terminal domain
ResIII	PF04851	119 - 284	1.3e-16	Type III restriction enzyme, res subunit
ERCC3_RAD25_C	PF16203	310 - 392	8.5e-33	ERCC3/RAD25/XPB C-terminal helicase

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: OG0001033)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G41360 AT5G41360 AT5G41370
fragaria_vesca	FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g02840 FvH4_5g19420 FvH4_5g19430 FvH4_7g08220 FvH4_7g08220
malus_domestica	MD06G1087900.v1.1
prunus_persica	Prupe.5G104000_v2.0.a1
pyrus_communis	pycom06g08400
rosa_chinensis	RchiOBHm_Chr1g0341611 RchiOBHm_Chr1g0341621 RchiOBHm_Chr1g0341861 RchiOBHm_Chr7g0197061 RchiOBHm_Chr7g0203931
rosa_laevigata	RLG00000003497 RLG00000003962 RLG00000029105 RLG00000029132
rosa_multiflora	Rmu_co8328521.1_g000001 Rmu_co8329503.1_g000001 Rmu_sc0002302.1_g000034 Rmu_sc0002322.1_g000070 Rmu_sc0003411.1_g000004 Rmu_sc0013871.1_g000001 Rmu_sc0032022.1_g000001
rosa_roxburghii	Rroxscaffold_3G00258690 Rroxscaffold_4G00312270 Rroxscaffold_4G00312590
rosa_rugosa	Rorug01G0154800.1 Rorug07G0037400 Rorug07G0079500
rosa_samantha	Rh1AG168500 Rh1AG170500 Rh1BG136800 Rh1BG138300 Rh1BG138400 Rh1CG156100 Rh1CG158700 Rh1DG170300 Rh1DG170600 Rh1DG170700 Rh7AG162300 Rh7AG209400 Rh7AG209500 Rh7BG164400 Rh7BG208200 Rh7BG208300 Rh7CG170500 Rh7CG221900 Rh7DG163800 Rh7DG216500
rosa_wichuraiana	Rw1G014160 Rw1G014180 Rw7G014170 Rw7G018250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	351, 353
AciI	CCGC	4 cut(s)	72, 438, 628, 631
AclI	AACGTT	1 cut(s)	247
AclWI	GGATC	1 cut(s)	212
AcsI	RAATTY	1 cut(s)	206
AcuI	CTGAAG	2 cut(s)	189, 987
AfaI	GTAC	4 cut(s)	107, 135, 290, 429
AfiI	CCNNNNNNNGG	1 cut(s)	323
AflII	CTTAAG	1 cut(s)	374
AgsI	TTSAA	4 cut(s)	233, 268, 547, 589
AluBI	AGCT	9 cut(s)	10, 25, 85, 373, 381, 492, 611, 832, 1174
AluI	AGCT	9 cut(s)	10, 25, 85, 373, 381, 492, 611, 832, 1174
Alw21I	GWGCWC	2 cut(s)	27, 389
AlwI	GGATC	1 cut(s)	212
AoxI	GGCC	1 cut(s)	835
ApeKI	GCWGC	6 cut(s)	470, 492, 611, 644, 1102, 1105
ApoI	RAATTY	1 cut(s)	206
Asp700I	GAANNNNTTC	1 cut(s)	792
AspLEI	GCGC	4 cut(s)	353, 443, 965, 1110
AspS9I	GGNCC	2 cut(s)	88, 699
AsuC2I	CCSGG	1 cut(s)	128
AsuHPI	GGTGA	3 cut(s)	805, 1127, 1141
AsuII	TTCGAA	2 cut(s)	210, 796
AvaII	GGWCC	2 cut(s)	88, 699
BanII	GRGCYC	1 cut(s)	27
BbsI	GAAGAC	2 cut(s)	48, 240
Bbv12I	GWGCWC	2 cut(s)	27, 389
BbvI	GCAGC	6 cut(s)	479, 482, 598, 631, 1114, 1117
BccI	CCATC	1 cut(s)	254
BceAI	ACGGC	2 cut(s)	858, 1095
BcgI	CGANNNNNNTGC	2 cut(s)	190, 224
BciVI	GTATCC	1 cut(s)	935
BclI	TGATCA	1 cut(s)	526
BcnI	CCSGG	1 cut(s)	128
BfaI	CTAG	1 cut(s)	455
BfmI	CTRYAG	3 cut(s)	295, 468, 612
BfoI	RGCGCY	1 cut(s)	1111
BfrI	CTTAAG	1 cut(s)	374
BfuI	GTATCC	1 cut(s)	935
BglII	AGATCT	2 cut(s)	413, 877
BisI	GCNGC	9 cut(s)	73, 439, 471, 493, 612, 631, 645, 1103, 1106
BlsI	GCNGC	9 cut(s)	74, 440, 472, 494, 613, 632, 646, 1104, 1107
Bme1390I	CCNGG	1 cut(s)	128
Bme18I	GGWCC	2 cut(s)	88, 699
BmgT120I	GGNCC	2 cut(s)	88, 699
BmiI	GGNNCC	1 cut(s)	701
BmrFI	CCNGG	1 cut(s)	128
BpiI	GAAGAC	2 cut(s)	48, 240
Bpu14I	TTCGAA	2 cut(s)	210, 796
BpuEI	CTTGAG	4 cut(s)	77, 170, 403, 874
BpuMI	CCSGG	1 cut(s)	128
BsaBI	GATNNNNATC	1 cut(s)	623
BsaJI	CCNNGG	2 cut(s)	276, 1111
Bsc4I	CCNNNNNNNGG	1 cut(s)	323
Bse1I	ACTGG	1 cut(s)	923
Bse3DI	GCAATG	3 cut(s)	143, 646, 945
Bse8I	GATNNNNATC	1 cut(s)	623
BseDI	CCNNGG	2 cut(s)	276, 1111
BseGI	GGATG	2 cut(s)	769, 804
BseJI	GATNNNNATC	1 cut(s)	623
BseLI	CCNNNNNNNGG	1 cut(s)	323
BseMI	GCAATG	3 cut(s)	143, 646, 945
BseNI	ACTGG	1 cut(s)	923
BseRI	GAGGAG	1 cut(s)	299
BseXI	GCAGC	6 cut(s)	479, 482, 598, 631, 1114, 1117
BseYI	CCCAGC	1 cut(s)	647
Bsh1236I	CGCG	2 cut(s)	351, 353
BshFI	GGCC	1 cut(s)	837
BsiHKAI	GWGCWC	2 cut(s)	27, 389
BsiSI	CCGG	1 cut(s)	128
BslFI	GGGAC	1 cut(s)	685
BslI	CCNNNNNNNGG	1 cut(s)	323
BsmFI	GGGAC	1 cut(s)	685
BsnI	GGCC	1 cut(s)	837
Bsp119I	TTCGAA	2 cut(s)	210, 796
Bsp1286I	GDGCHC	2 cut(s)	27, 389
Bsp143I	GATC	5 cut(s)	217, 413, 526, 877, 1122
Bsp19I	CCATGG	1 cut(s)	276
BspACI	CCGC	4 cut(s)	72, 438, 628, 631
BspANI	GGCC	1 cut(s)	837
BspFNI	CGCG	2 cut(s)	351, 353
BspHI	TCATGA	2 cut(s)	240, 1096
BspLI	GGNNCC	1 cut(s)	701
BspMAI	CTGCAG	2 cut(s)	472, 616
BspPI	GGATC	1 cut(s)	212
BspT104I	TTCGAA	2 cut(s)	210, 796
BspTI	CTTAAG	1 cut(s)	374
BsrDI	GCAATG	3 cut(s)	143, 646, 945
BsrI	ACTGG	1 cut(s)	923
BssECI	CCNNGG	2 cut(s)	276, 1111
BssMI	GATC	5 cut(s)	217, 413, 526, 877, 1122
BssT1I	CCWWGG	1 cut(s)	276
Bst4CI	ACNGT	3 cut(s)	599, 708, 1092
Bst6I	CTCTTC	1 cut(s)	1151
BstAFI	CTTAAG	1 cut(s)	374
BstBI	TTCGAA	2 cut(s)	210, 796
BstC8I	GCNNGC	5 cut(s)	254, 349, 677, 830, 1038
BstDSI	CCRYGG	2 cut(s)	276, 1111
BstF5I	GGATG	2 cut(s)	769, 804
BstFNI	CGCG	2 cut(s)	351, 353
BstH2I	RGCGCY	1 cut(s)	1111
BstHHI	GCGC	4 cut(s)	353, 443, 965, 1110
BstKTI	GATC	5 cut(s)	220, 416, 529, 880, 1125
BstMBI	GATC	5 cut(s)	217, 413, 526, 877, 1122
BstMWI	GCNNNNNNNGC	4 cut(s)	636, 681, 690, 834
BstNSI	RCATGY	1 cut(s)	679
BstSCI	CCNGG	1 cut(s)	126
BstSFI	CTRYAG	3 cut(s)	295, 468, 612
BstUI	CGCG	2 cut(s)	351, 353
BstV1I	GCAGC	6 cut(s)	479, 482, 598, 631, 1114, 1117
BstV2I	GAAGAC	2 cut(s)	48, 240
BstX2I	RGATCY	2 cut(s)	413, 877
BstYI	RGATCY	2 cut(s)	413, 877
BsuI	GTATCC	1 cut(s)	935
BsuRI	GGCC	1 cut(s)	837
BtgI	CCRYGG	2 cut(s)	276, 1111
BtsCI	GGATG	2 cut(s)	769, 804
BtsI	GCAGTG	1 cut(s)	823
BtsIMutI	CAGTG	3 cut(s)	536, 823, 1155
Cac8I	GCNNGC	5 cut(s)	254, 349, 677, 830, 1038
CciI	TCATGA	2 cut(s)	240, 1096
CfoI	GCGC	4 cut(s)	353, 443, 965, 1110
Cfr13I	GGNCC	2 cut(s)	88, 699
CseI	GACGC	1 cut(s)	856
Csp6I	GTAC	4 cut(s)	106, 134, 289, 428
CviAII	CATG	6 cut(s)	241, 277, 676, 760, 773, 1097
CviQI	GTAC	4 cut(s)	106, 134, 289, 428
DpnI	GATC	5 cut(s)	219, 415, 528, 879, 1124
DpnII	GATC	5 cut(s)	217, 413, 526, 877, 1122
Eam1104I	CTCTTC	1 cut(s)	1151
EarI	CTCTTC	1 cut(s)	1151
EciI	GGCGGA	1 cut(s)	617
Ecl136II	GAGCTC	1 cut(s)	25
Eco130I	CCWWGG	1 cut(s)	276
Eco24I	GRGCYC	1 cut(s)	27
Eco32I	GATATC	1 cut(s)	873
Eco47I	GGWCC	2 cut(s)	88, 699
Eco53kI	GAGCTC	1 cut(s)	25
Eco57I	CTGAAG	2 cut(s)	189, 987
EcoICRI	GAGCTC	1 cut(s)	25
EcoO109I	RGGNCCY	1 cut(s)	699
EcoRI	GAATTC	1 cut(s)	206
EcoRV	GATATC	1 cut(s)	873
EcoT14I	CCWWGG	1 cut(s)	276
EcoT38I	GRGCYC	1 cut(s)	27
ErhI	CCWWGG	1 cut(s)	276
FaeI	CATG	6 cut(s)	244, 280, 679, 763, 776, 1100
FalI	AAGNNNNNCTT	2 cut(s)	980, 1012
FaqI	GGGAC	1 cut(s)	685
FatI	CATG	6 cut(s)	240, 276, 675, 759, 772, 1096
FbaI	TGATCA	1 cut(s)	526
Fnu4HI	GCNGC	9 cut(s)	73, 439, 471, 493, 612, 631, 645, 1103, 1106
FokI	GGATG	2 cut(s)	776, 791
FriOI	GRGCYC	1 cut(s)	27
Fsp4HI	GCNGC	9 cut(s)	73, 439, 471, 493, 612, 631, 645, 1103, 1106
FspBI	CTAG	1 cut(s)	455
GlaI	GCGC	4 cut(s)	352, 442, 964, 1109
GluI	GCNGC	9 cut(s)	73, 439, 471, 493, 612, 631, 645, 1103, 1106
GsaI	CCCAGC	1 cut(s)	651
HaeII	RGCGCY	1 cut(s)	1111
HaeIII	GGCC	1 cut(s)	837
HapII	CCGG	1 cut(s)	128
HgaI	GACGC	1 cut(s)	856
HhaI	GCGC	4 cut(s)	353, 443, 965, 1110
Hin1II	CATG	6 cut(s)	244, 280, 679, 763, 776, 1100
Hin6I	GCGC	4 cut(s)	351, 441, 963, 1108
HinP1I	GCGC	4 cut(s)	351, 441, 963, 1108
HincII	GTYRAC	1 cut(s)	558
HindII	GTYRAC	1 cut(s)	558
HindIII	AAGCTT	1 cut(s)	830
HinfI	GANTC	5 cut(s)	116, 754, 788, 810, 1054
HpaII	CCGG	1 cut(s)	128
HphI	GGTGA	3 cut(s)	805, 1127, 1141
Hpy166II	GTNNAC	2 cut(s)	313, 558
Hpy188I	TCNGA	7 cut(s)	169, 595, 809, 877, 981, 1138, 1178
Hpy188III	TCNNGA	6 cut(s)	13, 94, 241, 566, 853, 1097
Hpy8I	GTNNAC	2 cut(s)	313, 558
Hpy99I	CGWCG	2 cut(s)	358, 850
HpyCH4III	ACNGT	3 cut(s)	599, 708, 1092
HpyCH4IV	ACGT	1 cut(s)	247
HpyCH4V	TGCA	4 cut(s)	470, 614, 828, 950
HpyF10VI	GCNNNNNNNGC	4 cut(s)	636, 681, 690, 834
HpySE526I	ACGT	1 cut(s)	247
Hsp92II	CATG	6 cut(s)	244, 280, 679, 763, 776, 1100
HspAI	GCGC	4 cut(s)	351, 441, 963, 1108
Ksp22I	TGATCA	1 cut(s)	526
Kzo9I	GATC	5 cut(s)	217, 413, 526, 877, 1122
LpnPI	CCDG	7 cut(s)	71, 141, 402, 429, 633, 795, 904
Lsp1109I	GCAGC	6 cut(s)	479, 482, 598, 631, 1114, 1117
MaeI	CTAG	1 cut(s)	455
MaeII	ACGT	1 cut(s)	247
MaeIII	GTNAC	2 cut(s)	661, 775
MalI	GATC	5 cut(s)	219, 415, 528, 879, 1124
MboI	GATC	5 cut(s)	217, 413, 526, 877, 1122
MboII	GAAGA	5 cut(s)	48, 245, 617, 872, 1138
MflI	RGATCY	2 cut(s)	413, 877
MhlI	GDGCHC	2 cut(s)	27, 389
MluCI	AATT	5 cut(s)	177, 206, 213, 423, 902
MmeI	TCCRAC	2 cut(s)	903, 1161
MroXI	GAANNNNTTC	1 cut(s)	792
MseI	TTAA	2 cut(s)	375, 623
MspCI	CTTAAG	1 cut(s)	374
MspI	CCGG	1 cut(s)	128
MspR9I	CCNGG	1 cut(s)	128
MvnI	CGCG	2 cut(s)	351, 353
MwoI	GCNNNNNNNGC	4 cut(s)	636, 681, 690, 834
NciI	CCSGG	1 cut(s)	128
NcoI	CCATGG	1 cut(s)	276
NdeII	GATC	5 cut(s)	217, 413, 526, 877, 1122
NlaIII	CATG	6 cut(s)	244, 280, 679, 763, 776, 1100
NlaIV	GGNNCC	1 cut(s)	701
NmeAIII	GCCGAG	1 cut(s)	1027
NmuCI	GTSAC	1 cut(s)	661
NspI	RCATGY	1 cut(s)	679
NspV	TTCGAA	2 cut(s)	210, 796
PaeI	GCATGC	1 cut(s)	679
PagI	TCATGA	2 cut(s)	240, 1096
PdmI	GAANNNNTTC	1 cut(s)	792
PfeI	GAWTC	5 cut(s)	116, 754, 788, 810, 1054
PfoI	TCCNGGA	1 cut(s)	126
PkrI	GCNGC	9 cut(s)	74, 440, 472, 494, 613, 632, 646, 1104, 1107
PpuMI	RGGWCCY	1 cut(s)	699
Psp124BI	GAGCTC	1 cut(s)	27
Psp1406I	AACGTT	1 cut(s)	247
Psp5II	RGGWCCY	1 cut(s)	699
PspFI	CCCAGC	1 cut(s)	647
PspN4I	GGNNCC	1 cut(s)	701
PspPI	GGNCC	2 cut(s)	88, 699
PspPPI	RGGWCCY	1 cut(s)	699
PsrI	GAACNNNNNNTAC	2 cut(s)	89, 121
PstI	CTGCAG	2 cut(s)	472, 616
PsuI	RGATCY	2 cut(s)	413, 877
RsaI	GTAC	4 cut(s)	107, 135, 290, 429
RsaNI	GTAC	4 cut(s)	106, 134, 289, 428
SacI	GAGCTC	1 cut(s)	27
SaqAI	TTAA	2 cut(s)	375, 623
SatI	GCNGC	9 cut(s)	73, 439, 471, 493, 612, 631, 645, 1103, 1106
Sau3AI	GATC	5 cut(s)	217, 413, 526, 877, 1122
Sau96I	GGNCC	2 cut(s)	88, 699
ScrFI	CCNGG	1 cut(s)	128
SduI	GDGCHC	2 cut(s)	27, 389
SfcI	CTRYAG	3 cut(s)	295, 468, 612
SfuI	TTCGAA	2 cut(s)	210, 796
SinI	GGWCC	2 cut(s)	88, 699
SmlI	CTYRAG	5 cut(s)	92, 149, 374, 382, 853
SmoI	CTYRAG	5 cut(s)	92, 149, 374, 382, 853
SphI	GCATGC	1 cut(s)	679
Sse9I	AATT	5 cut(s)	177, 206, 213, 423, 902
SsiI	CCGC	4 cut(s)	72, 438, 628, 631
SspMI	CTAG	1 cut(s)	455
SstI	GAGCTC	1 cut(s)	27
StyD4I	CCNGG	1 cut(s)	126
StyI	CCWWGG	1 cut(s)	276
TaaI	ACNGT	3 cut(s)	599, 708, 1092
TaiI	ACGT	1 cut(s)	250
TaqI	TCGA	4 cut(s)	14, 210, 565, 796
TasI	AATT	5 cut(s)	177, 206, 213, 423, 902
TatI	WGTACW	1 cut(s)	427
TauI	GCSGC	3 cut(s)	75, 441, 633
TfiI	GAWTC	5 cut(s)	116, 754, 788, 810, 1054
Tru1I	TTAA	2 cut(s)	375, 623
Tru9I	TTAA	2 cut(s)	375, 623
TscAI	CASTG	3 cut(s)	536, 830, 1162
TseFI	GTSAC	1 cut(s)	661
TseI	GCWGC	6 cut(s)	470, 492, 611, 644, 1102, 1105
Tsp45I	GTSAC	1 cut(s)	661
TspDTI	ATGAA	7 cut(s)	17, 257, 585, 761, 924, 1067, 1085
TspRI	CASTG	3 cut(s)	536, 830, 1162
Vha464I	CTTAAG	1 cut(s)	374
VpaK11BI	GGWCC	2 cut(s)	88, 699
XapI	RAATTY	1 cut(s)	206
XceI	RCATGY	1 cut(s)	679
XcmI	CCANNNNNNNNNTGG	1 cut(s)	325
XmnI	GAANNNNTTC	1 cut(s)	792
XspI	CTAG	1 cut(s)	455

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