Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003611

Physical Location & Seq

Genomic Coordinates Forward (+)

35887566 .. 35891674

Gene Structure 4109 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG324300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGTCCCAGAAGGAAAAAACTCTTGATGAATTTGTACGGGATAAATGGCTTTCCTTCACTGCTGAGGGTCATGTTGGACTTGGTGTCAGATCCTTCCTTGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTCATGCGAAGTGTGCAACGAAGCTGGCGTGAAGGCAGTGTTATGCCAGAAAGAGGGTTGTTTGGTTCGAATTCATCAGTACTGCGTAGGAAAACTGTTTGCTAAGAAAAAGGGTGAAAGAGTTTGTCCAAGTTGTGGTACTCAATGGCAATATACAGGACCAAAAGCAGAACCTGTAGAAGATGATGAGCCAGATTGCGCTACTCAGAGCCAACCACCTGTGGAACCCAAGAGAAAGAAGCTGAGAACAAGCCGAATTGGCCGGCACGCCATGTCCGACTGTTTCTCGGAAGATTATAAGAATAAAATGCCTGCATGGTCGAGTGTCCGTGACACTGTTGGGCGCCCACATGGATCAAATTCAAATCCCATGTCTTCTGGTTCTACTTCTTCTCAACCCAGTGTCCGTGACACTGTTGGGCGCCCACATGGATCAAATTCAAATCCACAGACGTCCGGGGAGACTCAGCCAACTGCTCAAGCTTGTCTAGGAAAAAGCAAAAGGAAATAA

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

SMC_Nse1 zf-RING-like

Protein Analysis

214

Amino Acids

23.68

Weight (kDa)

9.11

Isoelectric Point (pI)

54.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_Nse1	PF07574	1 - 35	1.7e-06	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	47 - 90	5.9e-10	RING-like 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)

Image

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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: OG0003611)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G21140
fragaria_vesca	FvH4_3g30540 FvH4_3g30540 FvH4_3g30540 FvH4_3g30540
malus_domestica	MD11G1180700.v1.1
prunus_persica	Prupe.6G153500_v2.0.a1
pyrus_communis	pycom11g15590
rosa_chinensis	RchiOBHm_Chr5g0056151 RchiOBHm_Chr5g0056531 RchiOBHm_Chr6g0256561
rosa_laevigata	RLG00000035103
rosa_multiflora	Rmu_sc0000366.1_g000003 Rmu_sc0000366.1_g000039 Rmu_sc0001787.1_g000001 Rmu_sc0002204.1_g000004 Rmu_sc0004101.1_g000056 Rmu_sc0004174.1_g000007 Rmu_sc0004368.1_g000013 Rmu_sc0027729.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023800
rosa_rugosa	Rorug05G0300600
rosa_samantha	Rh1BG210900 Rh1DG237500 Rh5AG370900 Rh5AG477300 Rh5BG382100 Rh5BG497800 Rh5CG324300 Rh5CG405300 Rh5DG395000
rosa_wichuraiana	Rw0G022130 Rw1G009200 Rw2G024960 Rw5G034750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	432
AatII	GACGTC	1 cut(s)	590
AccB1I	GGYRCC	2 cut(s)	477, 555
AccB7I	CCANNNNNTGG	1 cut(s)	269
AclWI	GGATC	3 cut(s)	84, 496, 574
AcoI	YGGCCR	1 cut(s)	394
AcsI	RAATTY	4 cut(s)	29, 204, 493, 571
AcyI	GRCGYC	3 cut(s)	478, 556, 587
AfaI	GTAC	3 cut(s)	36, 215, 274
AfiI	CCNNNNNNNGG	2 cut(s)	187, 269
AgsI	TTSAA	2 cut(s)	498, 576
AhdI	GACNNNNNGTC	1 cut(s)	83
AluBI	AGCT	3 cut(s)	158, 376, 617
AluI	AGCT	3 cut(s)	158, 376, 617
Alw26I	GTCTC	1 cut(s)	590
AlwI	GGATC	3 cut(s)	84, 496, 574
AlwNI	CAGNNNCTG	1 cut(s)	308
AoxI	GGCC	1 cut(s)	394
ApoI	RAATTY	4 cut(s)	29, 204, 493, 571
ArsI	GACNNNNNNTTYG	2 cut(s)	491, 523
AspLEI	GCGC	3 cut(s)	335, 480, 558
AspS9I	GGNCC	1 cut(s)	293
AsuC2I	CCSGG	1 cut(s)	592
AsuHPI	GGTGA	1 cut(s)	260
AsuII	TTCGAA	1 cut(s)	202
AvaII	GGWCC	1 cut(s)	293
BanI	GGYRCC	2 cut(s)	477, 555
BbsI	GAAGAC	1 cut(s)	501
BbvCI	CCTCAGC	1 cut(s)	63
BcnI	CCSGG	1 cut(s)	592
BcoDI	GTCTC	1 cut(s)	590
BfaI	CTAG	1 cut(s)	623
BfmI	CTRYAG	1 cut(s)	309
BfoI	RGCGCY	2 cut(s)	481, 559
BglI	GCCNNNNNGGC	1 cut(s)	393
BmcAI	AGTACT	1 cut(s)	215
Bme1390I	CCNGG	1 cut(s)	592
Bme18I	GGWCC	1 cut(s)	293
BmeRI	GACNNNNNGTC	1 cut(s)	83
BmgT120I	GGNCC	1 cut(s)	293
BmiI	GGNNCC	3 cut(s)	360, 479, 557
BmrFI	CCNGG	1 cut(s)	592
BmrI	ACTGGG	1 cut(s)	528
BmuI	ACTGGG	1 cut(s)	528
BpiI	GAAGAC	1 cut(s)	501
Bpu10I	CCTNAGC	1 cut(s)	63
Bpu14I	TTCGAA	1 cut(s)	202
BpuEI	CTTGAG	1 cut(s)	597
BpuMI	CCSGG	1 cut(s)	592
BsaHI	GRCGYC	3 cut(s)	478, 556, 587
BsaJI	CCNNGG	1 cut(s)	591
Bsc4I	CCNNNNNNNGG	2 cut(s)	187, 269
Bse118I	RCCGGY	1 cut(s)	396
Bse1I	ACTGG	1 cut(s)	534
BseDI	CCNNGG	1 cut(s)	591
BseLI	CCNNNNNNNGG	2 cut(s)	187, 269
BseMII	CTCAG	4 cut(s)	54, 353, 368, 614
BseNI	ACTGG	1 cut(s)	534
BshFI	GGCC	1 cut(s)	396
BshNI	GGYRCC	2 cut(s)	477, 555
BsiSI	CCGG	2 cut(s)	397, 591
BslI	CCNNNNNNNGG	2 cut(s)	187, 269
BsmAI	GTCTC	1 cut(s)	590
BsnI	GGCC	1 cut(s)	396
Bsp119I	TTCGAA	1 cut(s)	202
Bsp143I	GATC	4 cut(s)	89, 100, 488, 566
BspANI	GGCC	1 cut(s)	396
BspCNI	CTCAG	4 cut(s)	55, 352, 369, 613
BspLI	GGNNCC	3 cut(s)	360, 479, 557
BspPI	GGATC	3 cut(s)	84, 496, 574
BspT104I	TTCGAA	1 cut(s)	202
BspT107I	GGYRCC	2 cut(s)	477, 555
BsrFI	RCCGGY	1 cut(s)	396
BsrI	ACTGG	1 cut(s)	534
BssAI	RCCGGY	1 cut(s)	396
BssECI	CCNNGG	1 cut(s)	591
BssMI	GATC	4 cut(s)	89, 100, 488, 566
BssNI	GRCGYC	3 cut(s)	478, 556, 587
Bst4CI	ACNGT	4 cut(s)	231, 416, 472, 550
BstACI	GRCGYC	3 cut(s)	478, 556, 587
BstBI	TTCGAA	1 cut(s)	202
BstC8I	GCNNGC	4 cut(s)	160, 398, 402, 447
BstDEI	CTNAG	5 cut(s)	63, 237, 339, 377, 600
BstH2I	RGCGCY	2 cut(s)	481, 559
BstHHI	GCGC	3 cut(s)	335, 480, 558
BstKTI	GATC	4 cut(s)	92, 103, 491, 569
BstMAI	GTCTC	1 cut(s)	590
BstMBI	GATC	4 cut(s)	89, 100, 488, 566
BstMWI	GCNNNNNNNGC	2 cut(s)	147, 393
BstSCI	CCNGG	1 cut(s)	590
BstSFI	CTRYAG	1 cut(s)	309
BstV2I	GAAGAC	1 cut(s)	501
BstX2I	RGATCY	1 cut(s)	89
BstYI	RGATCY	1 cut(s)	89
BsuRI	GGCC	1 cut(s)	396
BtsI	GCAGTG	2 cut(s)	57, 177
BtsIMutI	CAGTG	5 cut(s)	57, 177, 468, 541, 546
Cac8I	GCNNGC	4 cut(s)	160, 398, 402, 447
CaiI	CAGNNNCTG	1 cut(s)	308
CfoI	GCGC	3 cut(s)	335, 480, 558
Cfr10I	RCCGGY	1 cut(s)	396
Cfr13I	GGNCC	1 cut(s)	293
Csp6I	GTAC	3 cut(s)	35, 214, 273
CviAII	CATG	7 cut(s)	71, 138, 406, 450, 485, 505, 563
CviJI	RGCY	9 cut(s)	49, 158, 325, 345, 376, 387, 396, 604, 617
CviKI_1	RGCY	9 cut(s)	49, 158, 325, 345, 376, 387, 396, 604, 617
CviQI	GTAC	3 cut(s)	35, 214, 273
DdeI	CTNAG	5 cut(s)	63, 237, 339, 377, 600
DinI	GGCGCC	2 cut(s)	479, 557
DpnI	GATC	4 cut(s)	91, 102, 490, 568
DpnII	GATC	4 cut(s)	89, 100, 488, 566
DriI	GACNNNNNGTC	1 cut(s)	83
EaeI	YGGCCR	1 cut(s)	394
Eam1105I	GACNNNNNGTC	1 cut(s)	83
Eco47I	GGWCC	1 cut(s)	293
EcoRI	GAATTC	1 cut(s)	204
EgeI	GGCGCC	2 cut(s)	479, 557
EheI	GGCGCC	2 cut(s)	479, 557
FaeI	CATG	7 cut(s)	74, 141, 409, 453, 488, 508, 566
FatI	CATG	7 cut(s)	70, 137, 405, 449, 484, 504, 562
FspBI	CTAG	1 cut(s)	623
GlaI	GCGC	3 cut(s)	334, 479, 557
HaeII	RGCGCY	2 cut(s)	481, 559
HaeIII	GGCC	1 cut(s)	396
HapII	CCGG	2 cut(s)	397, 591
HhaI	GCGC	3 cut(s)	335, 480, 558
Hin1I	GRCGYC	3 cut(s)	478, 556, 587
Hin1II	CATG	7 cut(s)	74, 141, 409, 453, 488, 508, 566
Hin6I	GCGC	3 cut(s)	333, 478, 556
HinP1I	GCGC	3 cut(s)	333, 478, 556
HindIII	AAGCTT	1 cut(s)	615
HinfI	GANTC	1 cut(s)	598
HpaII	CCGG	2 cut(s)	397, 591
HphI	GGTGA	1 cut(s)	260
Hpy188I	TCNGA	4 cut(s)	89, 342, 412, 424
Hpy188III	TCNNGA	1 cut(s)	23
HpyAV	CCTTC	5 cut(s)	4, 64, 103, 144, 160
HpyCH4III	ACNGT	4 cut(s)	231, 416, 472, 550
HpyCH4IV	ACGT	1 cut(s)	587
HpyCH4V	TGCA	2 cut(s)	150, 449
HpyF10VI	GCNNNNNNNGC	2 cut(s)	147, 393
HpyF3I	CTNAG	5 cut(s)	63, 237, 339, 377, 600
HpySE526I	ACGT	1 cut(s)	587
Hsp92I	GRCGYC	3 cut(s)	478, 556, 587
Hsp92II	CATG	7 cut(s)	74, 141, 409, 453, 488, 508, 566
HspAI	GCGC	3 cut(s)	333, 478, 556
KasI	GGCGCC	2 cut(s)	477, 555
KroI	GCCGGC	1 cut(s)	396
KroNI	GCCGGC	1 cut(s)	398
Kzo9I	GATC	4 cut(s)	89, 100, 488, 566
MaeI	CTAG	1 cut(s)	623
MaeII	ACGT	1 cut(s)	587
MaeIII	GTNAC	2 cut(s)	464, 542
MalI	GATC	4 cut(s)	91, 102, 490, 568
MboI	GATC	4 cut(s)	89, 100, 488, 566
MboII	GAAGA	4 cut(s)	326, 437, 501, 516
MflI	RGATCY	1 cut(s)	89
MluCI	AATT	5 cut(s)	29, 204, 390, 493, 571
Mly113I	GGCGCC	2 cut(s)	478, 556
MlyI	GAGTC	1 cut(s)	592
MmeI	TCCRAC	2 cut(s)	55, 435
MnlI	CCTC	2 cut(s)	58, 181
MroNI	GCCGGC	1 cut(s)	396
MspI	CCGG	2 cut(s)	397, 591
MspR9I	CCNGG	1 cut(s)	592
MwoI	GCNNNNNNNGC	2 cut(s)	147, 393
NaeI	GCCGGC	1 cut(s)	398
NarI	GGCGCC	2 cut(s)	478, 556
NciI	CCSGG	1 cut(s)	592
NdeII	GATC	4 cut(s)	89, 100, 488, 566
NgoMIV	GCCGGC	1 cut(s)	396
NlaIII	CATG	7 cut(s)	74, 141, 409, 453, 488, 508, 566
NlaIV	GGNNCC	3 cut(s)	360, 479, 557
NmuCI	GTSAC	2 cut(s)	464, 542
NspV	TTCGAA	1 cut(s)	202
PcsI	WCGNNNNNNNCGW	2 cut(s)	159, 408
PdiI	GCCGGC	1 cut(s)	398
PflMI	CCANNNNNTGG	1 cut(s)	269
PleI	GAGTC	1 cut(s)	592
PluTI	GGCGCC	2 cut(s)	481, 559
PpsI	GAGTC	1 cut(s)	592
PsiI	TTATAA	1 cut(s)	432
PspN4I	GGNNCC	3 cut(s)	360, 479, 557
PspPI	GGNCC	1 cut(s)	293
PstNI	CAGNNNCTG	1 cut(s)	308
PsuI	RGATCY	1 cut(s)	89
RsaI	GTAC	3 cut(s)	36, 215, 274
RsaNI	GTAC	3 cut(s)	35, 214, 273
Sau3AI	GATC	4 cut(s)	89, 100, 488, 566
Sau96I	GGNCC	1 cut(s)	293
ScaI	AGTACT	1 cut(s)	215
SchI	GAGTC	1 cut(s)	592
ScrFI	CCNGG	1 cut(s)	592
SetI	ASST	6 cut(s)	160, 310, 355, 378, 590, 619
SfcI	CTRYAG	1 cut(s)	309
SfoI	GGCGCC	2 cut(s)	479, 557
SfuI	TTCGAA	1 cut(s)	202
SinI	GGWCC	1 cut(s)	293
SmlI	CTYRAG	1 cut(s)	612
SmoI	CTYRAG	1 cut(s)	612
Sse9I	AATT	5 cut(s)	29, 204, 390, 493, 571
SspDI	GGCGCC	2 cut(s)	477, 555
SspMI	CTAG	1 cut(s)	623
StyD4I	CCNGG	1 cut(s)	590
TaaI	ACNGT	4 cut(s)	231, 416, 472, 550
TaiI	ACGT	1 cut(s)	590
TaqI	TCGA	2 cut(s)	202, 455
TasI	AATT	5 cut(s)	29, 204, 390, 493, 571
TatI	WGTACW	1 cut(s)	213
TscAI	CASTG	5 cut(s)	64, 177, 475, 541, 553
TseFI	GTSAC	2 cut(s)	464, 542
Tsp45I	GTSAC	2 cut(s)	464, 542
TspDTI	ATGAA	3 cut(s)	42, 126, 197
TspGWI	ACGGA	2 cut(s)	452, 530
TspRI	CASTG	5 cut(s)	64, 177, 475, 541, 553
Van91I	CCANNNNNTGG	1 cut(s)	269
VpaK11BI	GGWCC	1 cut(s)	293
XapI	RAATTY	4 cut(s)	29, 204, 493, 571
XspI	CTAG	1 cut(s)	623
ZraI	GACGTC	1 cut(s)	588
ZrmI	AGTACT	1 cut(s)	215

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