Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig01027

Orthogroup ID

OG0003611

Physical Location & Seq

Genomic Coordinates Forward (+)

22273 .. 24067

Gene Structure 1795 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G022130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATAGAAGCAATAGTGCAAGAAGCTGCTCAAGGAACCATATGTAGCAGAGGTTCACTTCCTATCCCTACTGCATTGAAGAACTTTTCAATGACCCAGATGGAAAAAACTCTTGATGAATTTGTACGGGATAAATGGCTTTCCTTCACTGCTGAGGGTCATGTTGGACTTGGTGCCAGATCCTTCCTTGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTCATGCGAAGTGTGCAACGAAACTGGCGTGAAGGCAGTGTTATGCCAGAAAGAGGGTTGTTCGGTTCGAATTCATCAGTACTGCCTAGGAAAACTGGTGAGAGTTTGTCCAAGTTGTGGTACTCAATGGCAATATACAGGACCAAAAGCAGAACCTGTAAAAGATGATGAGCCAGATTGCGCTACTCAGAGCCAACCACCTGTGGAACCCAAGAGACAGAAGTTGAGAACAAGCCGAATTGGTGATGTCCCAAGTAGATGGGCATGCACTAGAATGTTTTTCTTGTGTAAAATGTGGGTTTCAATGATTGGGAAATGCATCCCTTTTGCTTTTGAAGTTTAA

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

187

Amino Acids

21.01

Weight (kDa)

8.46

Isoelectric Point (pI)

47.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_Nse1	PF07574	22 - 64	2.1e-08	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	76 - 113	2.8e-07	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

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: 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)
AccB1I	GGYRCC	1 cut(s)	170
AccB7I	CCANNNNNTGG	1 cut(s)	338
AclWI	GGATC	1 cut(s)	171
AcsI	RAATTY	2 cut(s)	116, 291
AfaI	GTAC	3 cut(s)	123, 302, 343
AfiI	CCNNNNNNNGG	2 cut(s)	274, 338
AgsI	TTSAA	4 cut(s)	76, 87, 525, 557
AluBI	AGCT	1 cut(s)	23
AluI	AGCT	1 cut(s)	23
Alw26I	GTCTC	1 cut(s)	430
AlwI	GGATC	1 cut(s)	171
AlwNI	CAGNNNCTG	1 cut(s)	377
ApeKI	GCWGC	1 cut(s)	23
ApoI	RAATTY	2 cut(s)	116, 291
AspA2I	CCTAGG	1 cut(s)	307
AspLEI	GCGC	1 cut(s)	404
AspS9I	GGNCC	1 cut(s)	362
AsuHPI	GGTGA	2 cut(s)	331, 476
AsuII	TTCGAA	1 cut(s)	289
AvaII	GGWCC	1 cut(s)	362
AvrII	CCTAGG	1 cut(s)	307
BanI	GGYRCC	1 cut(s)	170
BbvCI	CCTCAGC	1 cut(s)	150
BbvI	GCAGC	1 cut(s)	10
BccI	CCATC	2 cut(s)	91, 474
BcoDI	GTCTC	1 cut(s)	430
BfaI	CTAG	2 cut(s)	308, 492
BisI	GCNGC	1 cut(s)	24
BlnI	CCTAGG	1 cut(s)	307
BlsI	GCNGC	1 cut(s)	25
BmcAI	AGTACT	1 cut(s)	302
Bme18I	GGWCC	1 cut(s)	362
BmgT120I	GGNCC	1 cut(s)	362
BmiI	GGNNCC	3 cut(s)	34, 172, 429
BmsI	GCATC	1 cut(s)	549
Bpu10I	CCTNAGC	1 cut(s)	150
Bpu14I	TTCGAA	1 cut(s)	289
BpuEI	CTTGAG	1 cut(s)	12
BsaJI	CCNNGG	1 cut(s)	307
Bsc4I	CCNNNNNNNGG	2 cut(s)	274, 338
Bse1I	ACTGG	2 cut(s)	250, 321
BseDI	CCNNGG	1 cut(s)	307
BseGI	GGATG	1 cut(s)	540
BseLI	CCNNNNNNNGG	2 cut(s)	274, 338
BseMII	CTCAG	2 cut(s)	141, 422
BseNI	ACTGG	2 cut(s)	250, 321
BseXI	GCAGC	1 cut(s)	10
BshNI	GGYRCC	1 cut(s)	170
BslFI	GGGAC	1 cut(s)	455
BslI	CCNNNNNNNGG	2 cut(s)	274, 338
BsmAI	GTCTC	1 cut(s)	430
BsmFI	GGGAC	1 cut(s)	455
Bsp119I	TTCGAA	1 cut(s)	289
Bsp143I	GATC	2 cut(s)	176, 187
BspCNI	CTCAG	2 cut(s)	142, 421
BspLI	GGNNCC	3 cut(s)	34, 172, 429
BspPI	GGATC	1 cut(s)	171
BspT104I	TTCGAA	1 cut(s)	289
BspT107I	GGYRCC	1 cut(s)	170
BsrI	ACTGG	2 cut(s)	250, 321
BssECI	CCNNGG	1 cut(s)	307
BssMI	GATC	2 cut(s)	176, 187
BssT1I	CCWWGG	1 cut(s)	307
BstBI	TTCGAA	1 cut(s)	289
BstC8I	GCNNGC	1 cut(s)	487
BstDEI	CTNAG	2 cut(s)	150, 408
BstF5I	GGATG	1 cut(s)	540
BstHHI	GCGC	1 cut(s)	404
BstKTI	GATC	2 cut(s)	179, 190
BstMAI	GTCTC	1 cut(s)	430
BstMBI	GATC	2 cut(s)	176, 187
BstMWI	GCNNNNNNNGC	1 cut(s)	234
BstNSI	RCATGY	1 cut(s)	489
BstV1I	GCAGC	1 cut(s)	10
BstX2I	RGATCY	1 cut(s)	176
BstXI	CCANNNNNNTGG	1 cut(s)	480
BstYI	RGATCY	1 cut(s)	176
BtsCI	GGATG	1 cut(s)	540
BtsI	GCAGTG	2 cut(s)	144, 264
BtsIMutI	CAGTG	2 cut(s)	144, 264
Cac8I	GCNNGC	1 cut(s)	487
CaiI	CAGNNNCTG	1 cut(s)	377
CfoI	GCGC	1 cut(s)	404
Cfr13I	GGNCC	1 cut(s)	362
Csp6I	GTAC	3 cut(s)	122, 301, 342
CviAII	CATG	3 cut(s)	158, 225, 486
CviJI	RGCY	5 cut(s)	23, 136, 394, 414, 456
CviKI_1	RGCY	5 cut(s)	23, 136, 394, 414, 456
CviQI	GTAC	3 cut(s)	122, 301, 342
DdeI	CTNAG	2 cut(s)	150, 408
DpnI	GATC	2 cut(s)	178, 189
DpnII	GATC	2 cut(s)	176, 187
Eco130I	CCWWGG	1 cut(s)	307
Eco47I	GGWCC	1 cut(s)	362
EcoRI	GAATTC	1 cut(s)	291
EcoT14I	CCWWGG	1 cut(s)	307
EcoT22I	ATGCAT	1 cut(s)	542
ErhI	CCWWGG	1 cut(s)	307
FaeI	CATG	3 cut(s)	161, 228, 489
FaiI	YATR	7 cut(s)	38, 40, 159, 226, 265, 357, 487
FaqI	GGGAC	1 cut(s)	455
FatI	CATG	3 cut(s)	157, 224, 485
FauNDI	CATATG	1 cut(s)	38
Fnu4HI	GCNGC	1 cut(s)	24
FokI	GGATG	1 cut(s)	527
Fsp4HI	GCNGC	1 cut(s)	24
FspBI	CTAG	2 cut(s)	308, 492
GlaI	GCGC	1 cut(s)	403
GluI	GCNGC	1 cut(s)	24
HhaI	GCGC	1 cut(s)	404
Hin1II	CATG	3 cut(s)	161, 228, 489
Hin6I	GCGC	1 cut(s)	402
HinP1I	GCGC	1 cut(s)	402
HphI	GGTGA	2 cut(s)	331, 476
Hpy166II	GTNNAC	1 cut(s)	53
Hpy188I	TCNGA	1 cut(s)	411
Hpy188III	TCNNGA	1 cut(s)	110
Hpy8I	GTNNAC	1 cut(s)	53
HpyAV	CCTTC	4 cut(s)	151, 190, 231, 247
HpyCH4V	TGCA	5 cut(s)	16, 71, 237, 489, 540
HpyF10VI	GCNNNNNNNGC	1 cut(s)	234
HpyF3I	CTNAG	2 cut(s)	150, 408
Hsp92II	CATG	3 cut(s)	161, 228, 489
HspAI	GCGC	1 cut(s)	402
Kzo9I	GATC	2 cut(s)	176, 187
LpnPI	CCDG	9 cut(s)	107, 187, 231, 281, 302, 345, 390, 408, 435
Lsp1109I	GCAGC	1 cut(s)	10
LweI	GCATC	1 cut(s)	549
MaeI	CTAG	2 cut(s)	308, 492
MalI	GATC	2 cut(s)	178, 189
MboI	GATC	2 cut(s)	176, 187
MboII	GAAGA	1 cut(s)	88
MflI	RGATCY	1 cut(s)	176
MluCI	AATT	3 cut(s)	116, 291, 459
MmeI	TCCRAC	1 cut(s)	142
MnlI	CCTC	3 cut(s)	41, 145, 268
Mph1103I	ATGCAT	1 cut(s)	542
MseI	TTAA	1 cut(s)	562
MslI	CAYNNNNRTG	1 cut(s)	494
MwoI	GCNNNNNNNGC	1 cut(s)	234
NdeI	CATATG	1 cut(s)	38
NdeII	GATC	2 cut(s)	176, 187
NlaIII	CATG	3 cut(s)	161, 228, 489
NlaIV	GGNNCC	3 cut(s)	34, 172, 429
NsiI	ATGCAT	1 cut(s)	542
NspI	RCATGY	1 cut(s)	489
NspV	TTCGAA	1 cut(s)	289
PaeI	GCATGC	1 cut(s)	489
PcsI	WCGNNNNNNNCGW	1 cut(s)	246
PflMI	CCANNNNNTGG	1 cut(s)	338
PkrI	GCNGC	1 cut(s)	25
PspN4I	GGNNCC	3 cut(s)	34, 172, 429
PspPI	GGNCC	1 cut(s)	362
PsrI	GAACNNNNNNTAC	2 cut(s)	34, 66
PstNI	CAGNNNCTG	1 cut(s)	377
PsuI	RGATCY	1 cut(s)	176
RsaI	GTAC	3 cut(s)	123, 302, 343
RsaNI	GTAC	3 cut(s)	122, 301, 342
RseI	CAYNNNNRTG	1 cut(s)	494
SaqAI	TTAA	1 cut(s)	562
SatI	GCNGC	1 cut(s)	24
Sau3AI	GATC	2 cut(s)	176, 187
Sau96I	GGNCC	1 cut(s)	362
ScaI	AGTACT	1 cut(s)	302
SetI	ASST	4 cut(s)	25, 52, 379, 424
SfaNI	GCATC	1 cut(s)	549
SfuI	TTCGAA	1 cut(s)	289
SinI	GGWCC	1 cut(s)	362
SmiMI	CAYNNNNRTG	1 cut(s)	494
SmlI	CTYRAG	1 cut(s)	27
SmoI	CTYRAG	1 cut(s)	27
SphI	GCATGC	1 cut(s)	489
Sse9I	AATT	3 cut(s)	116, 291, 459
SspMI	CTAG	2 cut(s)	308, 492
StyI	CCWWGG	1 cut(s)	307
TaqI	TCGA	1 cut(s)	289
TasI	AATT	3 cut(s)	116, 291, 459
TatI	WGTACW	1 cut(s)	300
Tru1I	TTAA	1 cut(s)	562
Tru9I	TTAA	1 cut(s)	562
TscAI	CASTG	2 cut(s)	151, 264
TseI	GCWGC	1 cut(s)	23
TspDTI	ATGAA	3 cut(s)	129, 213, 284
TspRI	CASTG	2 cut(s)	151, 264
Van91I	CCANNNNNTGG	1 cut(s)	338
VpaK11BI	GGWCC	1 cut(s)	362
XapI	RAATTY	2 cut(s)	116, 291
XceI	RCATGY	1 cut(s)	489
XmaJI	CCTAGG	1 cut(s)	307
XspI	CTAG	2 cut(s)	308, 492
ZrmI	AGTACT	1 cut(s)	302
Zsp2I	ATGCAT	1 cut(s)	542

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