Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003611

Physical Location & Seq

Genomic Coordinates Forward (+)

29435211 .. 29440130

Gene Structure 4920 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00023800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGACGGAACTGAACGCCAAGCACCACACTCTGATTCAAGCTCTGCTCTCTCGCGGCCCACTCAAAGAGGACCAGTTCCACCGCATGTTCTCGGAACTCACCGGAGAAAACCCAGGTGTTCGTCGGAAGGCGTTTGATGATTATCTTCTGAGGATAAACAAGGCCCTTTCTTATGTTCAGTTCGAGCTGCGGGGATGCAGGAATCAATATGATGGTCAAGTTTATTATGGAGTTGTCAATAATGTCTCTGATGAAGAATCAAAGCTGGGAACGACTTATTCGGTTCCTCAGATTGCTTTCTATAAGGCTATTATAGAAGCAATAGTGCAAGAAGCTGCTCAAGGAACCATATCTAGCAGTGATGCTCTTAATCTACGATTAGAGAATCAGGTTAACAGTGGTACATCATCACAATCACAAGGAGGTCCAGCTCCTATCCCTACTGCATTGAAGAACTTTTCAATGTCCCAGAAGGAAAAAACTCTTGATGAATTTGTACGGGATGAATGGCTTTCCTTCACTGCTGAGGGTCATGTTGGACTTGGTATCAGATCCTTCCTTGATCTGCGAAGTTGGTTTCGCAATAATGATGTTCCTTCATGCGAAGTGTGCAACGAAGCTGGCGTGAAGGCAGTGTTATGCCAGAAAGAGGGTTGTTCGGTTCGAATTCATCAGTACTGCCTAGGAAAACTGTTTGCTAAGAAAAAGGGTGAAAGAGTATGTCCAAGTTGTGGTACTCAATGGCAATATACAGGACCAAAAGCAGAAGCTGTAGAAGATGATGAGCCAGATTGCGCTACTCAGAGCCAACCACCTGTGGAACCCAAGAGAAAGAAGCTGAGAACAAGCCGAATTGGTGATGGAGATATAGTTGAATCTAGTTCCTCTCAGTCTTCCTTACCTGCTCGTAATCCGAGAAGATCAACTCGAAATTCCACCCGCCTCTAA

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

315

Amino Acids

35.12

Weight (kDa)

8.31

Isoelectric Point (pI)

49.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMC_Nse1	PF07574	8 - 189	1.6e-46	Nse1 non-SMC component of SMC5-6 complex
zf-RING-like	PF08746	201 - 244	4.5e-10	RING-like 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: 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)
Acc36I	ACCTGC	1 cut(s)	910
AccB7I	CCANNNNNTGG	1 cut(s)	731
AccII	CGCG	1 cut(s)	54
AciI	CCGC	4 cut(s)	54, 82, 190, 940
AclWI	GGATC	1 cut(s)	546
AcsI	RAATTY	3 cut(s)	491, 666, 931
AfaI	GTAC	4 cut(s)	403, 498, 677, 736
AfiI	CCNNNNNNNGG	2 cut(s)	649, 731
AgsI	TTSAA	4 cut(s)	38, 451, 462, 875
AjnI	CCWGG	1 cut(s)	112
AluBI	AGCT	8 cut(s)	41, 187, 265, 335, 431, 620, 770, 838
AluI	AGCT	8 cut(s)	41, 187, 265, 335, 431, 620, 770, 838
Alw26I	GTCTC	1 cut(s)	250
AlwI	GGATC	1 cut(s)	546
AlwNI	CAGNNNCTG	1 cut(s)	770
AoxI	GGCC	2 cut(s)	55, 162
ApeKI	GCWGC	2 cut(s)	187, 335
ApoI	RAATTY	3 cut(s)	491, 666, 931
AspA2I	CCTAGG	1 cut(s)	682
AspLEI	GCGC	1 cut(s)	797
AspS9I	GGNCC	5 cut(s)	56, 70, 163, 425, 755
AsuHPI	GGTGA	3 cut(s)	91, 722, 869
AsuII	TTCGAA	1 cut(s)	664
AvaII	GGWCC	3 cut(s)	70, 425, 755
AvrII	CCTAGG	1 cut(s)	682
BbsI	GAAGAC	1 cut(s)	885
BbvCI	CCTCAGC	1 cut(s)	525
BbvI	GCAGC	2 cut(s)	174, 322
BccI	CCATC	2 cut(s)	206, 854
BciT130I	CCWGG	1 cut(s)	114
BcoDI	GTCTC	1 cut(s)	250
BfaI	CTAG	3 cut(s)	354, 683, 879
BfmI	CTRYAG	1 cut(s)	771
BfuAI	ACCTGC	1 cut(s)	910
BisI	GCNGC	3 cut(s)	55, 188, 336
BlnI	CCTAGG	1 cut(s)	682
BlsI	GCNGC	3 cut(s)	56, 189, 337
BmcAI	AGTACT	1 cut(s)	677
Bme1390I	CCNGG	1 cut(s)	114
Bme18I	GGWCC	3 cut(s)	70, 425, 755
BmgT120I	GGNCC	5 cut(s)	56, 70, 163, 425, 755
BmiI	GGNNCC	3 cut(s)	285, 346, 822
BmrFI	CCNGG	1 cut(s)	114
BmsI	GCATC	2 cut(s)	185, 352
BpiI	GAAGAC	1 cut(s)	885
Bpu10I	CCTNAGC	1 cut(s)	525
Bpu14I	TTCGAA	1 cut(s)	664
BpuEI	CTTGAG	1 cut(s)	324
BsaBI	GATNNNNATC	1 cut(s)	141
BsaJI	CCNNGG	2 cut(s)	112, 682
BsaWI	WCCGGW	1 cut(s)	101
BsaXI	ACNNNNNCTCC	2 cut(s)	855, 885
Bsc4I	CCNNNNNNNGG	2 cut(s)	649, 731
Bse1I	ACTGG	1 cut(s)	73
Bse8I	GATNNNNATC	1 cut(s)	141
BseBI	CCWGG	1 cut(s)	114
BseDI	CCNNGG	2 cut(s)	112, 682
BseGI	GGATG	2 cut(s)	200, 508
BseJI	GATNNNNATC	1 cut(s)	141
BseLI	CCNNNNNNNGG	2 cut(s)	649, 731
BseMII	CTCAG	6 cut(s)	140, 302, 516, 815, 830, 902
BseNI	ACTGG	1 cut(s)	73
BseXI	GCAGC	2 cut(s)	174, 322
BseYI	CCCAGC	1 cut(s)	265
Bsh1236I	CGCG	1 cut(s)	54
BshFI	GGCC	2 cut(s)	57, 164
BsiSI	CCGG	1 cut(s)	102
BslFI	GGGAC	1 cut(s)	451
BslI	CCNNNNNNNGG	2 cut(s)	649, 731
BsmAI	GTCTC	1 cut(s)	250
BsmFI	GGGAC	1 cut(s)	451
BsnI	GGCC	2 cut(s)	57, 164
Bsp119I	TTCGAA	1 cut(s)	664
Bsp143I	GATC	3 cut(s)	551, 562, 920
BspACI	CCGC	4 cut(s)	54, 82, 190, 940
BspANI	GGCC	2 cut(s)	57, 164
BspCNI	CTCAG	6 cut(s)	141, 301, 517, 814, 831, 901
BspFNI	CGCG	1 cut(s)	54
BspLI	GGNNCC	3 cut(s)	285, 346, 822
BspMI	ACCTGC	1 cut(s)	910
BspPI	GGATC	1 cut(s)	546
BspT104I	TTCGAA	1 cut(s)	664
BsrI	ACTGG	1 cut(s)	73
BssECI	CCNNGG	2 cut(s)	112, 682
BssMI	GATC	3 cut(s)	551, 562, 920
BssT1I	CCWWGG	1 cut(s)	682
Bst2UI	CCWGG	1 cut(s)	114
Bst4CI	ACNGT	2 cut(s)	398, 693
BstBI	TTCGAA	1 cut(s)	664
BstC8I	GCNNGC	1 cut(s)	622
BstDEI	CTNAG	7 cut(s)	149, 288, 525, 699, 801, 839, 888
BstF5I	GGATG	2 cut(s)	200, 508
BstFNI	CGCG	1 cut(s)	54
BstHHI	GCGC	1 cut(s)	797
BstKTI	GATC	3 cut(s)	554, 565, 923
BstMAI	GTCTC	1 cut(s)	250
BstMBI	GATC	3 cut(s)	551, 562, 920
BstMWI	GCNNNNNNNGC	1 cut(s)	609
BstNI	CCWGG	1 cut(s)	114
BstNSI	RCATGY	1 cut(s)	88
BstSCI	CCNGG	1 cut(s)	112
BstSFI	CTRYAG	1 cut(s)	771
BstUI	CGCG	1 cut(s)	54
BstV1I	GCAGC	2 cut(s)	174, 322
BstV2I	GAAGAC	1 cut(s)	885
BstX2I	RGATCY	1 cut(s)	551
BstYI	RGATCY	1 cut(s)	551
BsuRI	GGCC	2 cut(s)	57, 164
BtsCI	GGATG	2 cut(s)	200, 508
BtsI	GCAGTG	3 cut(s)	364, 519, 639
BtsIMutI	CAGTG	4 cut(s)	364, 403, 519, 639
BveI	ACCTGC	1 cut(s)	910
Cac8I	GCNNGC	1 cut(s)	622
CaiI	CAGNNNCTG	1 cut(s)	770
CfoI	GCGC	1 cut(s)	797
Cfr13I	GGNCC	5 cut(s)	56, 70, 163, 425, 755
Csp6I	GTAC	4 cut(s)	402, 497, 676, 735
CviAII	CATG	3 cut(s)	85, 533, 600
CviQI	GTAC	4 cut(s)	402, 497, 676, 735
DdeI	CTNAG	7 cut(s)	149, 288, 525, 699, 801, 839, 888
DpnI	GATC	3 cut(s)	553, 564, 922
DpnII	GATC	3 cut(s)	551, 562, 920
Eco130I	CCWWGG	1 cut(s)	682
Eco47I	GGWCC	3 cut(s)	70, 425, 755
EcoO109I	RGGNCCY	1 cut(s)	163
EcoRI	GAATTC	1 cut(s)	666
EcoRII	CCWGG	1 cut(s)	112
EcoT14I	CCWWGG	1 cut(s)	682
ErhI	CCWWGG	1 cut(s)	682
FaeI	CATG	3 cut(s)	88, 536, 603
FaqI	GGGAC	1 cut(s)	451
FatI	CATG	3 cut(s)	84, 532, 599
FauI	CCCGC	1 cut(s)	183
Fnu4HI	GCNGC	3 cut(s)	55, 188, 336
FokI	GGATG	2 cut(s)	207, 515
Fsp4HI	GCNGC	3 cut(s)	55, 188, 336
FspBI	CTAG	3 cut(s)	354, 683, 879
GlaI	GCGC	1 cut(s)	796
GluI	GCNGC	3 cut(s)	55, 188, 336
GsaI	CCCAGC	1 cut(s)	269
HaeIII	GGCC	2 cut(s)	57, 164
HapII	CCGG	1 cut(s)	102
HhaI	GCGC	1 cut(s)	797
Hin1II	CATG	3 cut(s)	88, 536, 603
Hin6I	GCGC	1 cut(s)	795
HinP1I	GCGC	1 cut(s)	795
HincII	GTYRAC	1 cut(s)	394
HindII	GTYRAC	1 cut(s)	394
HinfI	GANTC	5 cut(s)	34, 202, 257, 385, 875
HpaI	GTTAAC	1 cut(s)	394
HpaII	CCGG	1 cut(s)	102
HphI	GGTGA	3 cut(s)	91, 722, 869
Hpy166II	GTNNAC	1 cut(s)	394
Hpy188I	TCNGA	9 cut(s)	33, 94, 126, 150, 250, 291, 551, 804, 915
Hpy188III	TCNNGA	1 cut(s)	485
Hpy8I	GTNNAC	1 cut(s)	394
Hpy99I	CGWCG	1 cut(s)	126
HpyAV	CCTTC	6 cut(s)	121, 466, 526, 565, 606, 622
HpyCH4III	ACNGT	2 cut(s)	398, 693
HpyCH4V	TGCA	4 cut(s)	198, 328, 446, 612
HpyF10VI	GCNNNNNNNGC	1 cut(s)	609
HpyF3I	CTNAG	7 cut(s)	149, 288, 525, 699, 801, 839, 888
Hsp92II	CATG	3 cut(s)	88, 536, 603
HspAI	GCGC	1 cut(s)	795
KspAI	GTTAAC	1 cut(s)	394
Kzo9I	GATC	3 cut(s)	551, 562, 920
LmnI	GCTCC	1 cut(s)	436
Lsp1109I	GCAGC	2 cut(s)	174, 322
LweI	GCATC	2 cut(s)	185, 352
MaeI	CTAG	3 cut(s)	354, 683, 879
MalI	GATC	3 cut(s)	553, 564, 922
MboI	GATC	3 cut(s)	551, 562, 920
MboII	GAAGA	6 cut(s)	137, 266, 463, 788, 885, 930
MflI	RGATCY	1 cut(s)	551
MluCI	AATT	4 cut(s)	491, 666, 852, 931
MmeI	TCCRAC	2 cut(s)	104, 517
MnlI	CCTC	7 cut(s)	61, 144, 297, 416, 520, 643, 895
MseI	TTAA	2 cut(s)	369, 393
MspI	CCGG	1 cut(s)	102
MspR9I	CCNGG	1 cut(s)	114
MvaI	CCWGG	1 cut(s)	114
MvnI	CGCG	1 cut(s)	54
MwoI	GCNNNNNNNGC	1 cut(s)	609
NdeII	GATC	3 cut(s)	551, 562, 920
NlaIII	CATG	3 cut(s)	88, 536, 603
NlaIV	GGNNCC	3 cut(s)	285, 346, 822
NspI	RCATGY	1 cut(s)	88
NspV	TTCGAA	1 cut(s)	664
PcsI	WCGNNNNNNNCGW	1 cut(s)	621
PfeI	GAWTC	5 cut(s)	34, 202, 257, 385, 875
PflMI	CCANNNNNTGG	1 cut(s)	731
PkrI	GCNGC	3 cut(s)	56, 189, 337
Psp6I	CCWGG	1 cut(s)	112
PspFI	CCCAGC	1 cut(s)	265
PspGI	CCWGG	1 cut(s)	112
PspN4I	GGNNCC	3 cut(s)	285, 346, 822
PspPI	GGNCC	5 cut(s)	56, 70, 163, 425, 755
PstNI	CAGNNNCTG	1 cut(s)	770
PsuI	RGATCY	1 cut(s)	551
RsaI	GTAC	4 cut(s)	403, 498, 677, 736
RsaNI	GTAC	4 cut(s)	402, 497, 676, 735
SaqAI	TTAA	2 cut(s)	369, 393
SatI	GCNGC	3 cut(s)	55, 188, 336
Sau3AI	GATC	3 cut(s)	551, 562, 920
Sau96I	GGNCC	5 cut(s)	56, 70, 163, 425, 755
ScaI	AGTACT	1 cut(s)	677
ScrFI	CCNGG	1 cut(s)	114
SfaNI	GCATC	2 cut(s)	185, 352
SfcI	CTRYAG	1 cut(s)	771
SfuI	TTCGAA	1 cut(s)	664
SinI	GGWCC	3 cut(s)	70, 425, 755
SmlI	CTYRAG	1 cut(s)	339
SmoI	CTYRAG	1 cut(s)	339
Sse9I	AATT	4 cut(s)	491, 666, 852, 931
SsiI	CCGC	4 cut(s)	54, 82, 190, 940
SspMI	CTAG	3 cut(s)	354, 683, 879
StyD4I	CCNGG	1 cut(s)	112
StyI	CCWWGG	1 cut(s)	682
TaaI	ACNGT	2 cut(s)	398, 693
TaqI	TCGA	3 cut(s)	183, 664, 928
TasI	AATT	4 cut(s)	491, 666, 852, 931
TatI	WGTACW	1 cut(s)	675
TauI	GCSGC	1 cut(s)	57
TfiI	GAWTC	5 cut(s)	34, 202, 257, 385, 875
Tru1I	TTAA	2 cut(s)	369, 393
Tru9I	TTAA	2 cut(s)	369, 393
TscAI	CASTG	4 cut(s)	364, 403, 526, 639
TseI	GCWGC	2 cut(s)	187, 335
TspDTI	ATGAA	5 cut(s)	267, 504, 519, 588, 659
TspGWI	ACGGA	1 cut(s)	20
TspRI	CASTG	4 cut(s)	364, 403, 526, 639
Van91I	CCANNNNNTGG	1 cut(s)	731
VpaK11BI	GGWCC	3 cut(s)	70, 425, 755
XapI	RAATTY	3 cut(s)	491, 666, 931
XceI	RCATGY	1 cut(s)	88
XmaJI	CCTAGG	1 cut(s)	682
XspI	CTAG	3 cut(s)	354, 683, 879
ZrmI	AGTACT	1 cut(s)	677

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