Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006670

Physical Location & Seq

Genomic Coordinates Reverse (-)

51255180 .. 51259942

Gene Structure 4763 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG313300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGGCATACAATCGGAGCAGTTTTTACGTCTTTGGGCAGTTGGGTAGTCGAGCGTTTTGGCCATTTGGCAGCAGGCAATGGAACCCCATGGTGGACTATGGAAGGAGTTTTCTCTTGGATAGCAATAATAATGGTGTCATCCACCGTAAAATTAAGCAACATATATTAACAACTGATTCCGAAAGAAGTATCTTTGGCTGGCTGTTCGGAGCGGTTGATCATCATAACCAGACAGTGCAGCTTCCGCAGCTTCGCGTCGTCGGTGGATGGGTCCGCGATAATCTCCTGGGAAGAGTTACTGGAGCACATTGTGATTGCTTTGGAGATTGTCTTGGCCACGAGACTACATACGTACCGATTACAGCTGAATGTGCCACACTGGATTATGATGATAATGGCGATGCTAAATCAAGAGAGAAAGATGTTGCACTGCATTTGCCTCTCCCACGGCTTTCTGGCGATTTCGGGCACGAATCTATGTTGTGCTTGCCGCCGTTTTTTCACTCAAGGCGTGCACCTGTTATCTCCACTGGTTCCTTGAAGCTTGATATAGCTTTCAGGACTGGAGGATTACCAAAGGGAAGAATTGTTGAGATTTATGGGCAGGAAGCATTTGGCAGGACTACATTCGCCCTTCACATCGTCAAGGAAGCCCAAAAGCTTGGAGATGTGTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000002 GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007005 GO:0008094 GO:0008150 GO:0008152 GO:0009266 GO:0009314 GO:0009408 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_17 RecA

Protein Analysis

225

Amino Acids

25.22

Weight (kDa)

7.73

Isoelectric Point (pI)

46.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	145 - 223	2e-17	RecA N-terminal 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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10140
fragaria_vesca	FvH4_6g24630 FvH4_6g24630 FvH4_6g24630 FvH4_6g24630
malus_domestica	MD08G1164600.v1.1
prunus_persica	Prupe.7G052200_v2.0.a1
pyrus_communis	pycom12654g00020
rosa_chinensis	RchiOBHm_Chr3g0483971
rosa_laevigata	RLG00000015036 RLG00000023245 RLG00000030551 RLG00000032361
rosa_multiflora	Rmu_sc0001190.1_g000001 Rmu_sc0001527.1_g000019 Rmu_sc0003477.1_g000015 Rmu_sc0020880.1_g000007 Rmu_ssc0000295.1_g000053
rosa_roxburghii	Rroxscaffold_6G00397920
rosa_rugosa	Rorug03G0209800
rosa_samantha	Rh3AG258000 Rh3BG295100 Rh3CG292500 Rh3DG288200 Rh6AG313300
rosa_wichuraiana	Rw6G027080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	212
AccII	CGCG	2 cut(s)	255, 276
AciI	CCGC	4 cut(s)	212, 245, 274, 491
AcoI	YGGCCR	2 cut(s)	59, 334
AdeI	CACNNNGTG	1 cut(s)	311
AfaI	GTAC	1 cut(s)	354
AfiI	CCNNNNNNNGG	1 cut(s)	91
AgsI	TTSAA	1 cut(s)	541
AjnI	CCWGG	1 cut(s)	285
AluBI	AGCT	6 cut(s)	241, 250, 365, 544, 554, 661
AluI	AGCT	6 cut(s)	241, 250, 365, 544, 554, 661
Alw21I	GWGCWC	2 cut(s)	307, 517
Alw26I	GTCTC	1 cut(s)	335
Alw44I	GTGCAC	1 cut(s)	513
AoxI	GGCC	2 cut(s)	59, 334
ApaLI	GTGCAC	1 cut(s)	513
ApeKI	GCWGC	3 cut(s)	69, 238, 247
AspS9I	GGNCC	1 cut(s)	271
AvaII	GGWCC	1 cut(s)	271
BaeGI	GKGCMC	2 cut(s)	471, 517
BaeI	ACNNNNGTAYC	2 cut(s)	336, 369
BalI	TGGCCA	2 cut(s)	61, 336
BauI	CACGAG	1 cut(s)	338
Bbv12I	GWGCWC	2 cut(s)	307, 517
BbvI	GCAGC	3 cut(s)	81, 250, 259
BccI	CCATC	1 cut(s)	261
BceAI	ACGGC	2 cut(s)	464, 478
BciT130I	CCWGG	1 cut(s)	287
BclI	TGATCA	1 cut(s)	217
BcoDI	GTCTC	1 cut(s)	335
BisI	GCNGC	4 cut(s)	70, 239, 248, 491
BlsI	GCNGC	4 cut(s)	71, 240, 249, 492
Bme1390I	CCNGG	1 cut(s)	287
Bme18I	GGWCC	1 cut(s)	271
BmgT120I	GGNCC	1 cut(s)	271
BmiI	GGNNCC	3 cut(s)	83, 272, 535
BmrFI	CCNGG	1 cut(s)	287
BmsI	GCATC	1 cut(s)	391
BpmI	CTGGAG	2 cut(s)	321, 585
BpuEI	CTTGAG	1 cut(s)	490
BsaAI	YACGTR	1 cut(s)	352
BsaJI	CCNNGG	3 cut(s)	87, 286, 446
Bsc4I	CCNNNNNNNGG	1 cut(s)	91
Bse1I	ACTGG	4 cut(s)	304, 384, 535, 568
Bse3DI	GCAATG	1 cut(s)	83
BseBI	CCWGG	1 cut(s)	287
BseDI	CCNNGG	3 cut(s)	87, 286, 446
BseGI	GGATG	2 cut(s)	138, 272
BseLI	CCNNNNNNNGG	1 cut(s)	91
BseMI	GCAATG	1 cut(s)	83
BseNI	ACTGG	4 cut(s)	304, 384, 535, 568
BseSI	GKGCMC	2 cut(s)	471, 517
BseXI	GCAGC	3 cut(s)	81, 250, 259
BsgI	GTGCAG	1 cut(s)	257
Bsh1236I	CGCG	2 cut(s)	255, 276
BshFI	GGCC	2 cut(s)	61, 336
BsiHKAI	GWGCWC	2 cut(s)	307, 517
BslI	CCNNNNNNNGG	1 cut(s)	91
BsmAI	GTCTC	1 cut(s)	335
BsnI	GGCC	2 cut(s)	61, 336
Bsp1286I	GDGCHC	3 cut(s)	307, 471, 517
Bsp143I	GATC	1 cut(s)	217
Bsp19I	CCATGG	1 cut(s)	87
BspACI	CCGC	4 cut(s)	212, 245, 274, 491
BspANI	GGCC	2 cut(s)	61, 336
BspFNI	CGCG	2 cut(s)	255, 276
BspLI	GGNNCC	3 cut(s)	83, 272, 535
BsrBI	CCGCTC	1 cut(s)	212
BsrDI	GCAATG	1 cut(s)	83
BsrI	ACTGG	4 cut(s)	304, 384, 535, 568
BssECI	CCNNGG	3 cut(s)	87, 286, 446
BssMI	GATC	1 cut(s)	217
BssSI	CACGAG	1 cut(s)	338
BssT1I	CCWWGG	1 cut(s)	87
Bst2BI	CACGAG	1 cut(s)	338
Bst2UI	CCWGG	1 cut(s)	287
Bst4CI	ACNGT	2 cut(s)	146, 235
Bst6I	CTCTTC	1 cut(s)	286
BstBAI	YACGTR	1 cut(s)	352
BstC8I	GCNNGC	4 cut(s)	74, 200, 488, 513
BstDSI	CCRYGG	2 cut(s)	87, 446
BstF5I	GGATG	2 cut(s)	138, 272
BstFNI	CGCG	2 cut(s)	255, 276
BstKTI	GATC	1 cut(s)	220
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	1 cut(s)	217
BstMWI	GCNNNNNNNGC	3 cut(s)	244, 247, 371
BstNI	CCWGG	1 cut(s)	287
BstSCI	CCNGG	1 cut(s)	285
BstSLI	GKGCMC	2 cut(s)	471, 517
BstSNI	TACGTA	1 cut(s)	352
BstUI	CGCG	2 cut(s)	255, 276
BstV1I	GCAGC	3 cut(s)	81, 250, 259
BstXI	CCANNNNNNTGG	1 cut(s)	662
BsuRI	GGCC	2 cut(s)	61, 336
BtgI	CCRYGG	2 cut(s)	87, 446
BtgZI	GCGATG	1 cut(s)	414
BtsCI	GGATG	2 cut(s)	138, 272
BtsI	GCAGTG	1 cut(s)	428
BtsIMutI	CAGTG	4 cut(s)	240, 377, 428, 528
Cac8I	GCNNGC	4 cut(s)	74, 200, 488, 513
Cfr13I	GGNCC	1 cut(s)	271
CseI	GACGC	1 cut(s)	244
Csp6I	GTAC	1 cut(s)	353
CviAII	CATG	1 cut(s)	88
CviQI	GTAC	1 cut(s)	353
DpnI	GATC	1 cut(s)	219
DpnII	GATC	1 cut(s)	217
DraIII	CACNNNGTG	1 cut(s)	311
EaeI	YGGCCR	2 cut(s)	59, 334
Eam1104I	CTCTTC	1 cut(s)	286
EarI	CTCTTC	1 cut(s)	286
Eco105I	TACGTA	1 cut(s)	352
Eco130I	CCWWGG	1 cut(s)	87
Eco47I	GGWCC	1 cut(s)	271
EcoRII	CCWGG	1 cut(s)	285
EcoT14I	CCWWGG	1 cut(s)	87
ErhI	CCWWGG	1 cut(s)	87
FaeI	CATG	1 cut(s)	91
FatI	CATG	1 cut(s)	87
FbaI	TGATCA	1 cut(s)	217
Fnu4HI	GCNGC	4 cut(s)	70, 239, 248, 491
FokI	GGATG	2 cut(s)	125, 279
Fsp4HI	GCNGC	4 cut(s)	70, 239, 248, 491
GluI	GCNGC	4 cut(s)	70, 239, 248, 491
GsuI	CTGGAG	2 cut(s)	321, 585
HaeIII	GGCC	2 cut(s)	61, 336
HgaI	GACGC	1 cut(s)	244
Hin1II	CATG	1 cut(s)	91
HindIII	AAGCTT	2 cut(s)	542, 659
HinfI	GANTC	2 cut(s)	176, 473
Hpy166II	GTNNAC	2 cut(s)	94, 515
Hpy188I	TCNGA	3 cut(s)	15, 181, 209
Hpy188III	TCNNGA	2 cut(s)	411, 559
Hpy8I	GTNNAC	2 cut(s)	94, 515
Hpy99I	CGWCG	2 cut(s)	260, 263
HpyAV	CCTTC	2 cut(s)	96, 644
HpyCH4III	ACNGT	2 cut(s)	146, 235
HpyCH4IV	ACGT	2 cut(s)	27, 351
HpyCH4V	TGCA	4 cut(s)	238, 428, 433, 515
HpyF10VI	GCNNNNNNNGC	3 cut(s)	244, 247, 371
HpySE526I	ACGT	2 cut(s)	27, 351
Hsp92II	CATG	1 cut(s)	91
Ksp22I	TGATCA	1 cut(s)	217
Kzo9I	GATC	1 cut(s)	217
LmnI	GCTCC	3 cut(s)	15, 209, 302
Lsp1109I	GCAGC	3 cut(s)	81, 250, 259
LweI	GCATC	1 cut(s)	391
MaeII	ACGT	2 cut(s)	27, 351
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	1 cut(s)	219
MbiI	CCGCTC	1 cut(s)	212
MboI	GATC	1 cut(s)	217
MboII	GAAGA	2 cut(s)	303, 594
MhlI	GDGCHC	3 cut(s)	307, 471, 517
MlsI	TGGCCA	2 cut(s)	61, 336
MluCI	AATT	2 cut(s)	150, 585
MluNI	TGGCCA	2 cut(s)	61, 336
MnlI	CCTC	2 cut(s)	450, 560
Mox20I	TGGCCA	2 cut(s)	61, 336
MscI	TGGCCA	2 cut(s)	61, 336
MseI	TTAA	3 cut(s)	153, 167, 676
Msp20I	TGGCCA	2 cut(s)	61, 336
MspA1I	CMGCKG	1 cut(s)	365
MspR9I	CCNGG	1 cut(s)	287
MvaI	CCWGG	1 cut(s)	287
MvnI	CGCG	2 cut(s)	255, 276
MwoI	GCNNNNNNNGC	3 cut(s)	244, 247, 371
NcoI	CCATGG	1 cut(s)	87
NdeII	GATC	1 cut(s)	217
NlaIII	CATG	1 cut(s)	91
NlaIV	GGNNCC	3 cut(s)	83, 272, 535
PfeI	GAWTC	2 cut(s)	176, 473
PkrI	GCNGC	4 cut(s)	71, 240, 249, 492
Ppu21I	YACGTR	1 cut(s)	352
Psp6I	CCWGG	1 cut(s)	285
PspGI	CCWGG	1 cut(s)	285
PspN4I	GGNNCC	3 cut(s)	83, 272, 535
PspPI	GGNCC	1 cut(s)	271
PvuII	CAGCTG	1 cut(s)	365
RsaI	GTAC	1 cut(s)	354
RsaNI	GTAC	1 cut(s)	353
SaqAI	TTAA	3 cut(s)	153, 167, 676
SatI	GCNGC	4 cut(s)	70, 239, 248, 491
Sau3AI	GATC	1 cut(s)	217
Sau96I	GGNCC	1 cut(s)	271
ScrFI	CCNGG	1 cut(s)	287
SduI	GDGCHC	3 cut(s)	307, 471, 517
SetI	ASST	9 cut(s)	30, 243, 252, 354, 367, 520, 546, 556, 663
SfaNI	GCATC	1 cut(s)	391
SinI	GGWCC	1 cut(s)	271
SmlI	CTYRAG	1 cut(s)	505
SmoI	CTYRAG	1 cut(s)	505
SnaBI	TACGTA	1 cut(s)	352
Sse9I	AATT	2 cut(s)	150, 585
SsiI	CCGC	4 cut(s)	212, 245, 274, 491
StyD4I	CCNGG	1 cut(s)	285
StyI	CCWWGG	1 cut(s)	87
TaaI	ACNGT	2 cut(s)	146, 235
TaiI	ACGT	2 cut(s)	30, 354
TaqI	TCGA	1 cut(s)	49
TasI	AATT	2 cut(s)	150, 585
TauI	GCSGC	1 cut(s)	493
TfiI	GAWTC	2 cut(s)	176, 473
Tru1I	TTAA	3 cut(s)	153, 167, 676
Tru9I	TTAA	3 cut(s)	153, 167, 676
TscAI	CASTG	4 cut(s)	240, 384, 435, 535
TseI	GCWGC	3 cut(s)	69, 238, 247
TspRI	CASTG	4 cut(s)	240, 384, 435, 535
VneI	GTGCAC	1 cut(s)	513
VpaK11BI	GGWCC	1 cut(s)	271

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