Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003611

Physical Location & Seq

Genomic Coordinates Forward (+)

79385161 .. 79418137

Gene Structure 32977 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG497800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGGCCCAAGAACTTGAAGAACAAGCAACGCCGCTAGTCATCCTCCGATGGCAAGATTTGGGCGAGTTGTCGAAAAATGAGCTTATTAATAAGGCTCCTGAAGACAATACCCTTCATCGTGAAGCAATAGTGCAAGAAGCTGCTCAAGGAACCATATCTAGCTGTGACGCTCTTAATCTACGATTAGAGAATCAGGTTAACAGTGGTACATCATCACAATCACAAGGAGGTTCACTTCCTATCCCTACTGCATTGAAGAACTTTTCAATGTCCCAGAAGGAAAAAACTCTTGATGAATTTGTACAGGATAAATGGCTTTCCTTCACTACTGAGGGTCATATTGGACTTGGTGTCAGATCCTGCCTCGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTCATGCGAAGTGTGCAACGAAGCTGGCGTGAAGGCAGTGTTATGCCAGAAAGAGGGTTGTTCGGTTCGAATTCATCAGTACTGCCTAGGAAAACTGTTTGCTAAGAAAAAGCGTGCAGTAACCATCAGGCAAGTTCGGCTTCATTTTCGTTCTTGA

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

185

Amino Acids

20.7

Weight (kDa)

7.59

Isoelectric Point (pI)

58.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_Nse1	PF07574	41 - 124	1.5e-11	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	136 - 171	7.6e-09	RING-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AciI	CCGC	1 cut(s)	32
AclWI	GGATC	1 cut(s)	351
AcsI	RAATTY	2 cut(s)	296, 471
AcuI	CTGAAG	1 cut(s)	120
AfaI	GTAC	3 cut(s)	208, 303, 482
AfiI	CCNNNNNNNGG	1 cut(s)	454
AgsI	TTSAA	3 cut(s)	17, 256, 267
AhdI	GACNNNNNGTC	1 cut(s)	350
AluBI	AGCT	4 cut(s)	82, 140, 162, 425
AluI	AGCT	4 cut(s)	82, 140, 162, 425
AlwI	GGATC	1 cut(s)	351
AlwNI	CAGNNNCTG	1 cut(s)	360
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	1 cut(s)	140
ApoI	RAATTY	2 cut(s)	296, 471
AseI	ATTAAT	1 cut(s)	87
AspA2I	CCTAGG	1 cut(s)	487
AspS9I	GGNCC	1 cut(s)	4
AsuII	TTCGAA	1 cut(s)	469
AvrII	CCTAGG	1 cut(s)	487
BbsI	GAAGAC	1 cut(s)	108
BbvI	GCAGC	1 cut(s)	127
BccI	CCATC	2 cut(s)	42, 533
BfaI	CTAG	3 cut(s)	35, 159, 488
BisI	GCNGC	2 cut(s)	32, 141
BlnI	CCTAGG	1 cut(s)	487
BlsI	GCNGC	2 cut(s)	33, 142
BmcAI	AGTACT	1 cut(s)	482
BmeRI	GACNNNNNGTC	1 cut(s)	350
BmgT120I	GGNCC	1 cut(s)	4
BmiI	GGNNCC	2 cut(s)	96, 151
BpiI	GAAGAC	1 cut(s)	108
Bpu14I	TTCGAA	1 cut(s)	469
BpuEI	CTTGAG	1 cut(s)	129
BsaJI	CCNNGG	1 cut(s)	487
Bsc4I	CCNNNNNNNGG	1 cut(s)	454
BseDI	CCNNGG	1 cut(s)	487
BseGI	GGATG	1 cut(s)	39
BseLI	CCNNNNNNNGG	1 cut(s)	454
BseMII	CTCAG	1 cut(s)	321
BseXI	GCAGC	1 cut(s)	127
BsgI	GTGCAG	1 cut(s)	537
BshFI	GGCC	1 cut(s)	5
BslFI	GGGAC	1 cut(s)	256
BslI	CCNNNNNNNGG	1 cut(s)	454
BsmFI	GGGAC	1 cut(s)	256
BsnI	GGCC	1 cut(s)	5
Bsp119I	TTCGAA	1 cut(s)	469
Bsp1407I	TGTACA	1 cut(s)	301
Bsp143I	GATC	2 cut(s)	356, 367
BspACI	CCGC	1 cut(s)	32
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	1 cut(s)	322
BspLI	GGNNCC	2 cut(s)	96, 151
BspPI	GGATC	1 cut(s)	351
BspT104I	TTCGAA	1 cut(s)	469
BsrGI	TGTACA	1 cut(s)	301
BssECI	CCNNGG	1 cut(s)	487
BssMI	GATC	2 cut(s)	356, 367
BssT1I	CCWWGG	1 cut(s)	487
Bst4CI	ACNGT	2 cut(s)	203, 498
BstAUI	TGTACA	1 cut(s)	301
BstBI	TTCGAA	1 cut(s)	469
BstC8I	GCNNGC	2 cut(s)	427, 516
BstDEI	CTNAG	2 cut(s)	330, 504
BstF5I	GGATG	1 cut(s)	39
BstKTI	GATC	2 cut(s)	359, 370
BstMBI	GATC	2 cut(s)	356, 367
BstMWI	GCNNNNNNNGC	2 cut(s)	414, 538
BstV1I	GCAGC	1 cut(s)	127
BstV2I	GAAGAC	1 cut(s)	108
BstX2I	RGATCY	1 cut(s)	356
BstYI	RGATCY	1 cut(s)	356
BsuRI	GGCC	1 cut(s)	5
BtsCI	GGATG	1 cut(s)	39
BtsI	GCAGTG	1 cut(s)	444
BtsIMutI	CAGTG	2 cut(s)	208, 444
Cac8I	GCNNGC	2 cut(s)	427, 516
CaiI	CAGNNNCTG	1 cut(s)	360
Cfr13I	GGNCC	1 cut(s)	4
CseI	GACGC	1 cut(s)	176
Csp6I	GTAC	3 cut(s)	207, 302, 481
CviAII	CATG	1 cut(s)	405
CviJI	RGCY	8 cut(s)	5, 82, 95, 140, 162, 316, 425, 541
CviKI_1	RGCY	8 cut(s)	5, 82, 95, 140, 162, 316, 425, 541
CviQI	GTAC	3 cut(s)	207, 302, 481
DdeI	CTNAG	2 cut(s)	330, 504
DpnI	GATC	2 cut(s)	358, 369
DpnII	GATC	2 cut(s)	356, 367
DriI	GACNNNNNGTC	1 cut(s)	350
Eam1105I	GACNNNNNGTC	1 cut(s)	350
Eco130I	CCWWGG	1 cut(s)	487
Eco57I	CTGAAG	1 cut(s)	120
EcoRI	GAATTC	1 cut(s)	471
EcoT14I	CCWWGG	1 cut(s)	487
ErhI	CCWWGG	1 cut(s)	487
FaeI	CATG	1 cut(s)	408
FaiI	YATR	4 cut(s)	155, 339, 406, 445
FalI	AAGNNNNNCTT	2 cut(s)	525, 557
FaqI	GGGAC	1 cut(s)	256
FatI	CATG	1 cut(s)	404
Fnu4HI	GCNGC	2 cut(s)	32, 141
FokI	GGATG	1 cut(s)	26
Fsp4HI	GCNGC	2 cut(s)	32, 141
FspBI	CTAG	3 cut(s)	35, 159, 488
GluI	GCNGC	2 cut(s)	32, 141
HaeIII	GGCC	1 cut(s)	5
HgaI	GACGC	1 cut(s)	176
Hin1II	CATG	1 cut(s)	408
HincII	GTYRAC	1 cut(s)	199
HindII	GTYRAC	1 cut(s)	199
HinfI	GANTC	1 cut(s)	190
HpaI	GTTAAC	1 cut(s)	199
Hpy166II	GTNNAC	2 cut(s)	199, 233
Hpy188I	TCNGA	2 cut(s)	47, 356
Hpy188III	TCNNGA	4 cut(s)	98, 119, 290, 555
Hpy8I	GTNNAC	2 cut(s)	199, 233
HpyAV	CCTTC	5 cut(s)	122, 271, 331, 411, 427
HpyCH4III	ACNGT	2 cut(s)	203, 498
HpyCH4V	TGCA	4 cut(s)	133, 251, 417, 518
HpyF10VI	GCNNNNNNNGC	2 cut(s)	414, 538
HpyF3I	CTNAG	2 cut(s)	330, 504
Hsp92II	CATG	1 cut(s)	408
KspAI	GTTAAC	1 cut(s)	199
Kzo9I	GATC	2 cut(s)	356, 367
LmnI	GCTCC	1 cut(s)	100
LpnPI	CCDG	8 cut(s)	111, 179, 287, 290, 373, 411, 461, 514
Lsp1109I	GCAGC	1 cut(s)	127
MaeI	CTAG	3 cut(s)	35, 159, 488
MaeIII	GTNAC	2 cut(s)	164, 520
MalI	GATC	2 cut(s)	358, 369
MboI	GATC	2 cut(s)	356, 367
MboII	GAAGA	3 cut(s)	29, 113, 268
MflI	RGATCY	1 cut(s)	356
MluCI	AATT	2 cut(s)	296, 471
MnlI	CCTC	5 cut(s)	53, 221, 325, 374, 448
MseI	TTAA	3 cut(s)	87, 174, 198
MwoI	GCNNNNNNNGC	2 cut(s)	414, 538
NdeII	GATC	2 cut(s)	356, 367
NlaIII	CATG	1 cut(s)	408
NlaIV	GGNNCC	2 cut(s)	96, 151
NmuCI	GTSAC	1 cut(s)	164
NspV	TTCGAA	1 cut(s)	469
PcsI	WCGNNNNNNNCGW	1 cut(s)	426
PfeI	GAWTC	1 cut(s)	190
PkrI	GCNGC	2 cut(s)	33, 142
PshBI	ATTAAT	1 cut(s)	87
PspN4I	GGNNCC	2 cut(s)	96, 151
PspPI	GGNCC	1 cut(s)	4
PstNI	CAGNNNCTG	1 cut(s)	360
PsuI	RGATCY	1 cut(s)	356
RsaI	GTAC	3 cut(s)	208, 303, 482
RsaNI	GTAC	3 cut(s)	207, 302, 481
SaqAI	TTAA	3 cut(s)	87, 174, 198
SatI	GCNGC	2 cut(s)	32, 141
Sau3AI	GATC	2 cut(s)	356, 367
Sau96I	GGNCC	1 cut(s)	4
ScaI	AGTACT	1 cut(s)	482
SetI	ASST	6 cut(s)	84, 142, 164, 198, 232, 427
SfuI	TTCGAA	1 cut(s)	469
SmlI	CTYRAG	1 cut(s)	144
SmoI	CTYRAG	1 cut(s)	144
Sse9I	AATT	2 cut(s)	296, 471
SsiI	CCGC	1 cut(s)	32
SspMI	CTAG	3 cut(s)	35, 159, 488
StyI	CCWWGG	1 cut(s)	487
TaaI	ACNGT	2 cut(s)	203, 498
TaqI	TCGA	3 cut(s)	71, 366, 469
TasI	AATT	2 cut(s)	296, 471
TatI	WGTACW	2 cut(s)	301, 480
TauI	GCSGC	1 cut(s)	34
TfiI	GAWTC	1 cut(s)	190
Tru1I	TTAA	3 cut(s)	87, 174, 198
Tru9I	TTAA	3 cut(s)	87, 174, 198
TscAI	CASTG	2 cut(s)	208, 444
TseFI	GTSAC	1 cut(s)	164
TseI	GCWGC	1 cut(s)	140
Tsp45I	GTSAC	1 cut(s)	164
TspDTI	ATGAA	5 cut(s)	104, 309, 393, 464, 533
TspRI	CASTG	2 cut(s)	208, 444
VspI	ATTAAT	1 cut(s)	87
XapI	RAATTY	2 cut(s)	296, 471
XmaJI	CCTAGG	1 cut(s)	487
XspI	CTAG	3 cut(s)	35, 159, 488
ZrmI	AGTACT	1 cut(s)	482

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