Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0003171

Physical Location & Seq

Genomic Coordinates Reverse (-)

60197659 .. 60201796

Gene Structure 4138 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG419200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGATGGGGTCTTTGCAAGGGCCAGTGATTTGCCCCACTGTCAGCGCAAAGCAAGCTGGTTCTTACAATCTGCCCATGGTAGGCCCTCTATTGAAGGTCAGGCATCTGAGAAGTGAGCTATGGGGATTGAAGGGAATCAGTGGTTGCATCACTAAGGCAGGCTTTGCTGCTCGCCCTCAAAATGCACGAAAATGCACAAGAGTGCATTGTACTTTCAGTTCTTCGTCAAATGGGAATGGAAGCATGGCAGAGAATTTCAATGAAAATGATGAAGACTATGTTAATTCTAGTGTACTTGAGGCCGTTGAGGTGAAGAGTGGAGCTGATGGGTTCATGATCAAAATGAGGGATGGCAGGCACATGAGGTGTGTCCATAACAACCCTCAGGGTGGCCATCTGCCAGACTATGCTCCACATCCCGCAATTGTACTGAAGATGGAAGATGGGACTGGCCTTCTTCTCCCAATTATTGTTTTGGAAATGCCTAGTGTGTTGCTCATGGCAGCAGTGCGCAATGTTCCTATTGCTAGGCCAACTATGTATCAAGTGGTGAGGGAAATGATTGACAAGATGGGCTATGAGGTCCAACTTGTTAGAGTCACTAAGAGAGTGCATGAAGCATATTTTGCTCAGTTATACCTCAGAAAGGCAGGTTTTTTCTCATGCATTATAATAAATGCTTCATTCTTCATTTATCTGACTCTGGGAAAGGAGGGGAAGGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0004518 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009620 GO:0009987 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043207 GO:0043565 GO:0044237 GO:0044238 GO:0046483 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:0098542 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNase-RNase UVR

Protein Analysis

241

Amino Acids

26.56

Weight (kDa)

9.25

Isoelectric Point (pI)

38.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BFN_dom	PF02577	142 - 217	6.2e-10	Bifunctional nuclease domain

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: OG0003171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19660 AT1G19660 AT1G19660 AT1G75380 AT1G75380 AT1G75380 AT1G75380
fragaria_vesca	FvH4_2g39410 FvH4_2g39410 FvH4_2g39410
malus_domestica	MD08G1026400.v1.1 MD15G1023200.v1.1
prunus_persica	Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1 Prupe.1G375100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0301571
rosa_laevigata	RLG00000009590 RLG00000011243
rosa_multiflora	Rmu_ssc0000452.1_g000006
rosa_roxburghii	Rroxscaffold_7G00166640
rosa_rugosa	Rorug06G0306400 Rorug06G0306500 Rorug06G0306500 Rorug06G0306600
rosa_samantha	Rh4AG062700 Rh4AG063700 Rh4BG062400 Rh4CG068700 Rh6AG419900 Rh6BG425900 Rh6CG432900 Rh6DG419200
rosa_wichuraiana	Rw6G036300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	671
Acc16I	TGCGCA	1 cut(s)	512
Acc36I	ACCTGC	1 cut(s)	641
AciI	CCGC	1 cut(s)	420
AcoI	YGGCCR	1 cut(s)	391
AcsI	RAATTY	1 cut(s)	253
AcuI	CTGAAG	1 cut(s)	452
AfaI	GTAC	3 cut(s)	211, 294, 429
AfiI	CCNNNNNNNGG	3 cut(s)	80, 389, 646
AgsI	TTSAA	3 cut(s)	94, 130, 259
AleI	CACNNNNGTG	1 cut(s)	200
AluBI	AGCT	3 cut(s)	56, 118, 323
AluI	AGCT	3 cut(s)	56, 118, 323
AoxI	GGCC	6 cut(s)	20, 82, 300, 391, 451, 530
ApeKI	GCWGC	2 cut(s)	167, 503
ApoI	RAATTY	1 cut(s)	253
AspLEI	GCGC	2 cut(s)	47, 513
AspS9I	GGNCC	3 cut(s)	20, 83, 583
AsuHPI	GGTGA	2 cut(s)	322, 562
AvaII	GGWCC	1 cut(s)	583
AxyI	CCTNAGG	1 cut(s)	384
BalI	TGGCCA	1 cut(s)	393
BbsI	GAAGAC	1 cut(s)	279
BbvI	GCAGC	2 cut(s)	154, 515
BccI	CCATC	6 cut(s)	320, 344, 402, 430, 437, 565
BceAI	ACGGC	1 cut(s)	287
BclI	TGATCA	1 cut(s)	336
BfaI	CTAG	3 cut(s)	288, 486, 528
BfuAI	ACCTGC	1 cut(s)	641
BisI	GCNGC	2 cut(s)	168, 504
BlsI	GCNGC	2 cut(s)	169, 505
Bme18I	GGWCC	1 cut(s)	583
BmgT120I	GGNCC	3 cut(s)	20, 83, 583
BmsI	GCATC	2 cut(s)	112, 156
BpiI	GAAGAC	1 cut(s)	279
BpuEI	CTTGAG	1 cut(s)	317
BsaJI	CCNNGG	1 cut(s)	75
Bsc4I	CCNNNNNNNGG	3 cut(s)	80, 389, 646
Bse1I	ACTGG	2 cut(s)	23, 454
Bse21I	CCTNAGG	1 cut(s)	384
Bse3DI	GCAATG	1 cut(s)	520
BseDI	CCNNGG	1 cut(s)	75
BseGI	GGATG	2 cut(s)	355, 415
BseLI	CCNNNNNNNGG	3 cut(s)	80, 389, 646
BseMI	GCAATG	1 cut(s)	520
BseMII	CTCAG	4 cut(s)	98, 398, 644, 655
BseNI	ACTGG	2 cut(s)	23, 454
BseXI	GCAGC	2 cut(s)	154, 515
BshFI	GGCC	6 cut(s)	22, 84, 302, 393, 453, 532
BslFI	GGGAC	1 cut(s)	460
BslI	CCNNNNNNNGG	3 cut(s)	80, 389, 646
BsmFI	GGGAC	1 cut(s)	460
BsnI	GGCC	6 cut(s)	22, 84, 302, 393, 453, 532
Bsp143I	GATC	1 cut(s)	336
Bsp19I	CCATGG	1 cut(s)	75
BspACI	CCGC	1 cut(s)	420
BspANI	GGCC	6 cut(s)	22, 84, 302, 393, 453, 532
BspCNI	CTCAG	4 cut(s)	99, 397, 643, 654
BspHI	TCATGA	1 cut(s)	333
BspMI	ACCTGC	1 cut(s)	641
BsrDI	GCAATG	1 cut(s)	520
BsrI	ACTGG	2 cut(s)	23, 454
BssECI	CCNNGG	1 cut(s)	75
BssMI	GATC	1 cut(s)	336
BssT1I	CCWWGG	1 cut(s)	75
Bst4CI	ACNGT	1 cut(s)	40
Bst6I	CTCTTC	1 cut(s)	308
BstAPI	GCANNNNNTGC	2 cut(s)	164, 626
BstC8I	GCNNGC	4 cut(s)	54, 160, 172, 356
BstDEI	CTNAG	6 cut(s)	107, 153, 384, 603, 630, 641
BstDSI	CCRYGG	1 cut(s)	75
BstENI	CCTNNNNNAGG	1 cut(s)	644
BstF5I	GGATG	2 cut(s)	355, 415
BstHHI	GCGC	2 cut(s)	47, 513
BstKTI	GATC	1 cut(s)	339
BstMBI	GATC	1 cut(s)	336
BstMWI	GCNNNNNNNGC	3 cut(s)	53, 164, 626
BstV1I	GCAGC	2 cut(s)	154, 515
BstV2I	GAAGAC	1 cut(s)	279
Bsu36I	CCTNAGG	1 cut(s)	384
BsuRI	GGCC	6 cut(s)	22, 84, 302, 393, 453, 532
BtgI	CCRYGG	1 cut(s)	75
BtsCI	GGATG	2 cut(s)	355, 415
BtsI	GCAGTG	1 cut(s)	513
BtsIMutI	CAGTG	4 cut(s)	30, 36, 145, 513
BveI	ACCTGC	1 cut(s)	641
Cac8I	GCNNGC	4 cut(s)	54, 160, 172, 356
CciI	TCATGA	1 cut(s)	333
CfoI	GCGC	2 cut(s)	47, 513
Cfr13I	GGNCC	3 cut(s)	20, 83, 583
Csp6I	GTAC	3 cut(s)	210, 293, 428
CviAII	CATG	7 cut(s)	76, 244, 334, 361, 499, 614, 663
CviQI	GTAC	3 cut(s)	210, 293, 428
DdeI	CTNAG	6 cut(s)	107, 153, 384, 603, 630, 641
DpnI	GATC	1 cut(s)	338
DpnII	GATC	1 cut(s)	336
EaeI	YGGCCR	1 cut(s)	391
Eam1104I	CTCTTC	1 cut(s)	308
EarI	CTCTTC	1 cut(s)	308
Eco130I	CCWWGG	1 cut(s)	75
Eco47I	GGWCC	1 cut(s)	583
Eco57I	CTGAAG	1 cut(s)	452
Eco81I	CCTNAGG	1 cut(s)	384
EcoNI	CCTNNNNNAGG	1 cut(s)	644
EcoO109I	RGGNCCY	1 cut(s)	83
EcoT14I	CCWWGG	1 cut(s)	75
EcoT22I	ATGCAT	1 cut(s)	668
ErhI	CCWWGG	1 cut(s)	75
FaeI	CATG	7 cut(s)	79, 247, 337, 364, 502, 617, 666
FalI	AAGNNNNNCTT	2 cut(s)	146, 178
FaqI	GGGAC	1 cut(s)	460
FatI	CATG	7 cut(s)	75, 243, 333, 360, 498, 613, 662
FauI	CCCGC	1 cut(s)	427
FbaI	TGATCA	1 cut(s)	336
Fnu4HI	GCNGC	2 cut(s)	168, 504
FokI	GGATG	2 cut(s)	362, 402
Fsp4HI	GCNGC	2 cut(s)	168, 504
FspBI	CTAG	3 cut(s)	288, 486, 528
FspI	TGCGCA	1 cut(s)	512
GlaI	GCGC	2 cut(s)	46, 512
GluI	GCNGC	2 cut(s)	168, 504
HaeIII	GGCC	6 cut(s)	22, 84, 302, 393, 453, 532
HhaI	GCGC	2 cut(s)	47, 513
Hin1II	CATG	7 cut(s)	79, 247, 337, 364, 502, 617, 666
Hin6I	GCGC	2 cut(s)	45, 511
HinP1I	GCGC	2 cut(s)	45, 511
HinfI	GANTC	3 cut(s)	135, 597, 700
HphI	GGTGA	2 cut(s)	322, 562
Hpy166II	GTNNAC	1 cut(s)	293
Hpy188I	TCNGA	3 cut(s)	108, 644, 699
Hpy188III	TCNNGA	1 cut(s)	334
Hpy8I	GTNNAC	1 cut(s)	293
HpyAV	CCTTC	4 cut(s)	88, 124, 464, 712
HpyCH4III	ACNGT	1 cut(s)	40
HpyCH4V	TGCA	7 cut(s)	16, 147, 185, 195, 205, 613, 666
HpyF10VI	GCNNNNNNNGC	3 cut(s)	53, 164, 626
HpyF3I	CTNAG	6 cut(s)	107, 153, 384, 603, 630, 641
Hsp92II	CATG	7 cut(s)	79, 247, 337, 364, 502, 617, 666
HspAI	GCGC	2 cut(s)	45, 511
Ksp22I	TGATCA	1 cut(s)	336
Kzo9I	GATC	1 cut(s)	336
LmnI	GCTCC	2 cut(s)	320, 415
Lsp1109I	GCAGC	2 cut(s)	154, 515
LweI	GCATC	2 cut(s)	112, 156
MaeI	CTAG	3 cut(s)	288, 486, 528
MaeIII	GTNAC	1 cut(s)	598
MalI	GATC	1 cut(s)	338
MboI	GATC	1 cut(s)	336
MboII	GAAGA	7 cut(s)	213, 284, 325, 445, 449, 452, 679
MfeI	CAATTG	1 cut(s)	423
MlsI	TGGCCA	1 cut(s)	393
MluCI	AATT	4 cut(s)	253, 283, 423, 465
MluNI	TGGCCA	1 cut(s)	393
MlyI	GAGTC	2 cut(s)	606, 694
MmeI	TCCRAC	1 cut(s)	610
Mox20I	TGGCCA	1 cut(s)	393
Mph1103I	ATGCAT	1 cut(s)	668
MscI	TGGCCA	1 cut(s)	393
MseI	TTAA	1 cut(s)	282
MslI	CAYNNNNRTG	2 cut(s)	190, 200
Msp20I	TGGCCA	1 cut(s)	393
MunI	CAATTG	1 cut(s)	423
MwoI	GCNNNNNNNGC	3 cut(s)	53, 164, 626
NcoI	CCATGG	1 cut(s)	75
NdeII	GATC	1 cut(s)	336
NlaIII	CATG	7 cut(s)	79, 247, 337, 364, 502, 617, 666
NmuCI	GTSAC	1 cut(s)	598
NsbI	TGCGCA	1 cut(s)	512
NsiI	ATGCAT	1 cut(s)	668
OliI	CACNNNNGTG	1 cut(s)	200
PagI	TCATGA	1 cut(s)	333
PfeI	GAWTC	1 cut(s)	135
PkrI	GCNGC	2 cut(s)	169, 505
PleI	GAGTC	2 cut(s)	605, 694
PpsI	GAGTC	2 cut(s)	605, 694
PsiI	TTATAA	1 cut(s)	671
PspPI	GGNCC	3 cut(s)	20, 83, 583
PsrI	GAACNNNNNNTAC	2 cut(s)	202, 234
RsaI	GTAC	3 cut(s)	211, 294, 429
RsaNI	GTAC	3 cut(s)	210, 293, 428
RseI	CAYNNNNRTG	2 cut(s)	190, 200
SaqAI	TTAA	1 cut(s)	282
SatI	GCNGC	2 cut(s)	168, 504
Sau3AI	GATC	1 cut(s)	336
Sau96I	GGNCC	3 cut(s)	20, 83, 583
SchI	GAGTC	2 cut(s)	606, 694
SfaNI	GCATC	2 cut(s)	112, 156
SinI	GGWCC	1 cut(s)	583
SmiMI	CAYNNNNRTG	2 cut(s)	190, 200
SmlI	CTYRAG	1 cut(s)	296
SmoI	CTYRAG	1 cut(s)	296
Sse9I	AATT	4 cut(s)	253, 283, 423, 465
SsiI	CCGC	1 cut(s)	420
SspMI	CTAG	3 cut(s)	288, 486, 528
StyI	CCWWGG	1 cut(s)	75
TaaI	ACNGT	1 cut(s)	40
TasI	AATT	4 cut(s)	253, 283, 423, 465
TatI	WGTACW	3 cut(s)	209, 292, 427
TfiI	GAWTC	1 cut(s)	135
Tru1I	TTAA	1 cut(s)	282
Tru9I	TTAA	1 cut(s)	282
TscAI	CASTG	4 cut(s)	30, 43, 145, 513
TseFI	GTSAC	1 cut(s)	598
TseI	GCWGC	2 cut(s)	167, 503
Tsp45I	GTSAC	1 cut(s)	598
TspDTI	ATGAA	6 cut(s)	276, 285, 322, 630, 672, 679
TspRI	CASTG	4 cut(s)	30, 43, 145, 513
VpaK11BI	GGWCC	1 cut(s)	583
XagI	CCTNNNNNAGG	1 cut(s)	644
XapI	RAATTY	1 cut(s)	253
XspI	CTAG	3 cut(s)	288, 486, 528
Zsp2I	ATGCAT	1 cut(s)	668

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