Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001005

Physical Location & Seq

Genomic Coordinates Reverse (-)

79808812 .. 79810631

Gene Structure 1820 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00141560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGTCGAGTAGGTCAGATCAAATCCCATCGTTTGAGACAACTCATCAAATCGTCTCTTCCCGTAGAATCTCAATAGTATGGAGGACTGTACCAAGCAGTTCTGTTGATAGCGGTGTTACGATTCCACCAAGTGATGACGAGCTTCAGATTCGATTTGAATTCACCAAAGAAAACGAACACACTTTTGGATTAGATATTGAAGACAGTGAAGTTCTTGAAACTTTTTGTCTCCCTCAAAGTGAAAAGGTCATTACCATCCATCCTTCCGAGTTATGTGGCGAGGATACTACAAGCATTATGCAATCTGATTCGGTATGCTTGATAGTGGACTTTGTTAATACCCATTTCCCTCCATTAGATAAAGAAAATATGCTTCCTATTATTGTGGACAAAATAATCAAGTTAGTTCATGATTCGACCAGCTCCTTTCCCTTACCTTCTAATCGTGTGATTGTTGTGCACCGACGTGATGTGGCTACGGTTTTCCATTCTATTGACGATGACGTGAAGGAAATGGGCATAAGACGTCATTTCAGAAATACAAAACGCGGGACATGTTCTATTTGTATGGATAACTATGAAGTTGGACTTAATGGTAGTCGATTGCCTTGCTTGCATGTTTTTCATGGAGTCTGCATTGTTCAGTGGTTGGTGAGAAATCCTAGTTGCCCCATTTGCCGGAATCCTATATCAGCTGAAATGGCAACATGGTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001817 GO:0001818 GO:0001959 GO:0001960 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006464 GO:0006807 GO:0006915 GO:0007154 GO:0007165 GO:0007346 GO:0008150 GO:0008152 GO:0008219 GO:0008270 GO:0008283 GO:0009794 GO:0009889 GO:0009966 GO:0009968 GO:0009987 GO:0010468 GO:0010556 GO:0010646 GO:0010648 GO:0010803 GO:0010804 GO:0012501 GO:0016567 GO:0016740 GO:0019219 GO:0019222 GO:0019538 GO:0019787 GO:0019899 GO:0023051 GO:0023052 GO:0023057 GO:0031323 GO:0031326 GO:0031624 GO:0032088 GO:0032446 GO:0032479 GO:0032480 GO:0032648 GO:0032688 GO:0036211 GO:0040019 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043433 GO:0044092 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044390 GO:0044424 GO:0044464 GO:0045787 GO:0045931 GO:0045977 GO:0045995 GO:0046872 GO:0046914 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048583 GO:0048585 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051090 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051241 GO:0051252 GO:0051716 GO:0051726 GO:0060255 GO:0060759 GO:0060761 GO:0061630 GO:0061659 GO:0065007 GO:0065009 GO:0070182 GO:0070647 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1903506 GO:2000026 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

238

Amino Acids

26.99

Weight (kDa)

5.42

Isoelectric Point (pI)

51.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	184 - 231	9.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	185 - 227	3.2e-13	Ring finger domain
zf-rbx1	PF12678	185 - 227	2.6e-06	RING-H2 zinc finger domain
zf-C3HC4_2	PF13923	186 - 226	5.5e-10	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	186 - 226	7.1e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	186 - 213	4.2e-07	RING-like zinc finger
zf-RING_UBOX	PF13445	186 - 224	5.6e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001005)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g03311 FvH4_1g03372 FvH4_1g03372 FvH4_1g03372 FvH4_1g03410 FvH4_7g17680
rosa_chinensis	RchiOBHm_Chr2g0088491 RchiOBHm_Chr4g0384981 RchiOBHm_Chr6g0259471
rosa_laevigata	RLG00000014530 RLG00000015792 RLG00000015960 RLG00000022174 RLG00000029710 RLG00000033515
rosa_multiflora	Rmu_sc0004733.1_g000012 Rmu_sc0004805.1_g000053 Rmu_sc0006835.1_g000015 Rmu_sc0007698.1_g000010 Rmu_sc0014136.1_g000011 Rmu_sc0015442.1_g000010
rosa_roxburghii	Rroxscaffold_1G00021120 Rroxscaffold_2G00141560 Rroxscaffold_2G00149520 Rroxscaffold_2G00152480 Rroxscaffold_2G00154190 Rroxscaffold_5G00334720 Rroxscaffold_7G00206750
rosa_rugosa	Rorug01G0027500 Rorug01G0484600 Rorug05G0589000 Rorug06G0124200
rosa_samantha	Rh1CG038700 Rh1DG031100 Rh2AG022000 Rh2AG034300 Rh2AG039500 Rh2AG040000 Rh2AG041000 Rh2AG143100 Rh2AG402000 Rh2BG022100 Rh2BG038500 Rh2BG148200 Rh2CG022800 Rh2CG039700 Rh2CG044000 Rh2DG022500 Rh2DG034000 Rh2DG039000 Rh2DG040100 Rh2DG148800 Rh2DG422100 Rh3DG253200 Rh3DG253700 Rh4AG002200 Rh4AG021800 Rh4AG359100 Rh5AG287200 Rh5AG287600 Rh5AG306100 Rh6DG088000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	529
AccII	CGCG	1 cut(s)	549
AciI	CCGC	2 cut(s)	111, 549
AcsI	RAATTY	1 cut(s)	158
AcuI	CTGAAG	1 cut(s)	128
AcyI	GRCGYC	1 cut(s)	526
AdeI	CACNNNGTG	1 cut(s)	131
AfaI	GTAC	1 cut(s)	90
AfiI	CCNNNNNNNGG	1 cut(s)	678
AflIII	ACRYGT	1 cut(s)	554
AgsI	TTSAA	3 cut(s)	158, 200, 218
AjiI	CACGTC	2 cut(s)	467, 505
AjuI	GAANNNNNNNTTGG	2 cut(s)	168, 200
AleI	CACNNNNGTG	1 cut(s)	465
AluBI	AGCT	3 cut(s)	142, 423, 695
AluI	AGCT	3 cut(s)	142, 423, 695
Alw21I	GWGCWC	1 cut(s)	462
Alw26I	GTCTC	3 cut(s)	29, 58, 233
Alw44I	GTGCAC	1 cut(s)	458
ApaLI	GTGCAC	1 cut(s)	458
ApoI	RAATTY	1 cut(s)	158
AsuHPI	GGTGA	2 cut(s)	154, 664
BaeGI	GKGCMC	1 cut(s)	462
BbsI	GAAGAC	1 cut(s)	207
Bbv12I	GWGCWC	1 cut(s)	462
BccI	CCATC	3 cut(s)	34, 263, 267
BcgI	CGANNNNNNTGC	2 cut(s)	591, 625
BciVI	GTATCC	1 cut(s)	277
BcoDI	GTCTC	3 cut(s)	29, 58, 233
BfaI	CTAG	1 cut(s)	663
BfuI	GTATCC	1 cut(s)	277
BmgBI	CACGTC	2 cut(s)	467, 505
BpiI	GAAGAC	1 cut(s)	207
BsaHI	GRCGYC	1 cut(s)	526
Bsc4I	CCNNNNNNNGG	1 cut(s)	678
BseGI	GGATG	2 cut(s)	255, 259
BseLI	CCNNNNNNNGG	1 cut(s)	678
BseSI	GKGCMC	1 cut(s)	462
Bsh1236I	CGCG	1 cut(s)	549
BsiHKAI	GWGCWC	1 cut(s)	462
BsiSI	CCGG	1 cut(s)	679
BslFI	GGGAC	1 cut(s)	565
BslI	CCNNNNNNNGG	1 cut(s)	678
BsmAI	GTCTC	3 cut(s)	29, 58, 233
BsmBI	CGTCTC	1 cut(s)	58
BsmFI	GGGAC	1 cut(s)	565
Bsp1286I	GDGCHC	1 cut(s)	462
Bsp143I	GATC	1 cut(s)	16
BspACI	CCGC	2 cut(s)	111, 549
BspFNI	CGCG	1 cut(s)	549
BspHI	TCATGA	1 cut(s)	409
BssMI	GATC	1 cut(s)	16
BssNI	GRCGYC	1 cut(s)	526
Bst4CI	ACNGT	3 cut(s)	88, 206, 481
Bst6I	CTCTTC	1 cut(s)	61
BstACI	GRCGYC	1 cut(s)	526
BstC8I	GCNNGC	1 cut(s)	614
BstF5I	GGATG	2 cut(s)	255, 259
BstFNI	CGCG	1 cut(s)	549
BstKTI	GATC	1 cut(s)	19
BstMAI	GTCTC	3 cut(s)	29, 58, 233
BstMBI	GATC	1 cut(s)	16
BstMWI	GCNNNNNNNGC	3 cut(s)	613, 675, 701
BstNSI	RCATGY	2 cut(s)	558, 620
BstSLI	GKGCMC	1 cut(s)	462
BstUI	CGCG	1 cut(s)	549
BstV2I	GAAGAC	1 cut(s)	207
BsuI	GTATCC	1 cut(s)	277
BtrI	CACGTC	2 cut(s)	467, 505
BtsCI	GGATG	2 cut(s)	255, 259
BtsIMutI	CAGTG	2 cut(s)	211, 650
Cac8I	GCNNGC	1 cut(s)	614
CciI	TCATGA	1 cut(s)	409
Csp6I	GTAC	1 cut(s)	89
CviAII	CATG	5 cut(s)	410, 555, 617, 626, 708
CviJI	RGCY	4 cut(s)	142, 423, 476, 695
CviKI_1	RGCY	4 cut(s)	142, 423, 476, 695
CviQI	GTAC	1 cut(s)	89
DpnI	GATC	1 cut(s)	18
DpnII	GATC	1 cut(s)	16
DraIII	CACNNNGTG	1 cut(s)	131
Eam1104I	CTCTTC	1 cut(s)	61
EarI	CTCTTC	1 cut(s)	61
Eco57I	CTGAAG	1 cut(s)	128
EcoRI	GAATTC	1 cut(s)	158
Esp3I	CGTCTC	1 cut(s)	58
FaeI	CATG	5 cut(s)	413, 558, 620, 629, 711
FalI	AAGNNNNNCTT	2 cut(s)	573, 605
FaqI	GGGAC	1 cut(s)	565
FatI	CATG	5 cut(s)	409, 554, 616, 625, 707
FauI	CCCGC	1 cut(s)	542
FokI	GGATG	2 cut(s)	242, 246
FspBI	CTAG	1 cut(s)	663
HapII	CCGG	1 cut(s)	679
Hin1I	GRCGYC	1 cut(s)	526
Hin1II	CATG	5 cut(s)	413, 558, 620, 629, 711
HinfI	GANTC	7 cut(s)	66, 121, 148, 308, 413, 630, 682
HpaII	CCGG	1 cut(s)	679
HphI	GGTGA	2 cut(s)	154, 664
Hpy166II	GTNNAC	3 cut(s)	328, 388, 460
Hpy188I	TCNGA	5 cut(s)	16, 147, 268, 307, 536
Hpy188III	TCNNGA	2 cut(s)	215, 410
Hpy8I	GTNNAC	3 cut(s)	328, 388, 460
Hpy99I	CGWCG	1 cut(s)	468
HpyAV	CCTTC	3 cut(s)	273, 447, 502
HpyCH4III	ACNGT	3 cut(s)	88, 206, 481
HpyCH4IV	ACGT	3 cut(s)	466, 504, 526
HpyCH4V	TGCA	4 cut(s)	301, 460, 616, 636
HpyF10VI	GCNNNNNNNGC	3 cut(s)	613, 675, 701
HpySE526I	ACGT	3 cut(s)	466, 504, 526
Hsp92I	GRCGYC	1 cut(s)	526
Hsp92II	CATG	5 cut(s)	413, 558, 620, 629, 711
Kzo9I	GATC	1 cut(s)	16
LmnI	GCTCC	1 cut(s)	428
LpnPI	CCDG	2 cut(s)	433, 692
MaeI	CTAG	1 cut(s)	663
MaeII	ACGT	3 cut(s)	466, 504, 526
MaeIII	GTNAC	1 cut(s)	115
MalI	GATC	1 cut(s)	18
MboI	GATC	1 cut(s)	16
MboII	GAAGA	2 cut(s)	48, 212
MhlI	GDGCHC	1 cut(s)	462
MluCI	AATT	1 cut(s)	158
MlyI	GAGTC	1 cut(s)	639
MmeI	TCCRAC	1 cut(s)	565
MnlI	CCTC	4 cut(s)	75, 243, 274, 360
MseI	TTAA	3 cut(s)	336, 591, 715
MslI	CAYNNNNRTG	1 cut(s)	465
MspA1I	CMGCKG	1 cut(s)	695
MspI	CCGG	1 cut(s)	679
MvnI	CGCG	1 cut(s)	549
MwoI	GCNNNNNNNGC	3 cut(s)	613, 675, 701
NdeII	GATC	1 cut(s)	16
NlaIII	CATG	5 cut(s)	413, 558, 620, 629, 711
NspI	RCATGY	2 cut(s)	558, 620
OliI	CACNNNNGTG	1 cut(s)	465
PagI	TCATGA	1 cut(s)	409
PciI	ACATGT	1 cut(s)	554
PfeI	GAWTC	6 cut(s)	66, 121, 148, 308, 413, 682
PleI	GAGTC	1 cut(s)	638
PpsI	GAGTC	1 cut(s)	638
PscI	ACATGT	1 cut(s)	554
PvuII	CAGCTG	1 cut(s)	695
RsaI	GTAC	1 cut(s)	90
RsaNI	GTAC	1 cut(s)	89
RseI	CAYNNNNRTG	1 cut(s)	465
SaqAI	TTAA	3 cut(s)	336, 591, 715
Sau3AI	GATC	1 cut(s)	16
SchI	GAGTC	1 cut(s)	639
SduI	GDGCHC	1 cut(s)	462
SetI	ASST	9 cut(s)	14, 144, 249, 425, 439, 469, 507, 529, 697
SmiMI	CAYNNNNRTG	1 cut(s)	465
Sse9I	AATT	1 cut(s)	158
SsiI	CCGC	2 cut(s)	111, 549
SspMI	CTAG	1 cut(s)	663
TaaI	ACNGT	3 cut(s)	88, 206, 481
TaiI	ACGT	3 cut(s)	469, 507, 529
TaqI	TCGA	4 cut(s)	5, 151, 416, 601
TasI	AATT	1 cut(s)	158
TfiI	GAWTC	6 cut(s)	66, 121, 148, 308, 413, 682
Tru1I	TTAA	3 cut(s)	336, 591, 715
Tru9I	TTAA	3 cut(s)	336, 591, 715
TscAI	CASTG	2 cut(s)	211, 650
TspDTI	ATGAA	3 cut(s)	398, 594, 614
TspRI	CASTG	2 cut(s)	211, 650
VneI	GTGCAC	1 cut(s)	458
XapI	RAATTY	1 cut(s)	158
XceI	RCATGY	2 cut(s)	558, 620
XspI	CTAG	1 cut(s)	663
ZraI	GACGTC	1 cut(s)	527

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