Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001005

Physical Location & Seq

Genomic Coordinates Reverse (-)

25052316 .. 25052990

Gene Structure 675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG253700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGTTTTCGTCAAAGAACTATACCATACAGCCTTATTATGATGGTGCAATGGCATGGTGGATTAGTGATCTTCCGGCATGGCCGACCTGTAATGCAGGGGTAGTGATTCCACCGAGTGATGACCTCAAGATCCAATTTCTATCTTACAAGCAAACCATACATCTATTTGGCCCCATTAAAGAAGAATACAACTTACTCCAAAGTGAAAAAGTTATCACGATCCATCCTTCTGAGCTACGTAATGAAGATACTACTAGTATTATGCAATCTCCTTCAATGCATATGATCAAGCAGGTTATTGACACCAGATTTCCTATATCAGAAAAGGCAGTGCGACTTGAAGTTGAGGAAGGTATACTTCGACTCGTTCAGAAACCAGGTACACCCATCTTAGTGCCTCCTAACCATAGGATTTTTGTTAAAGCAATTGACGGGATTAAGATTTTGCATGATGCTTGTGACAAGAGTGCGAAACAGAGCATACATGATCATTTGGAAGCTACGAGATGCGCAACATGTACTATTTGTATGGATGACATTAACCTTAGTAAACCTAGTCGATTGCCTTGCTTGCACTTGTTTCATCACTGTTGCATTGCTAAGTGGCTGGAGATGAAGCACGAGTGTCCCTATTGCCGAAGTCCAGTTCCTCATGAATTTGTTACATGGTTTTAA

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

224

Amino Acids

25.74

Weight (kDa)

6.62

Isoelectric Point (pI)

57.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	172 - 213	4e-11	Ring finger domain
zf-C3HC4_2	PF13923	173 - 212	2e-06	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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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)
Acc16I	TGCGCA	1 cut(s)	511
Acc36I	ACCTGC	1 cut(s)	283
AccI	GTMKAC	1 cut(s)	355
AclWI	GGATC	2 cut(s)	124, 214
AcoI	YGGCCR	1 cut(s)	80
AcsI	RAATTY	1 cut(s)	656
AdeI	CACNNNGTG	1 cut(s)	116
AfaI	GTAC	2 cut(s)	382, 520
AflIII	ACRYGT	1 cut(s)	515
AgsI	TTSAA	2 cut(s)	276, 341
AhlI	ACTAGT	1 cut(s)	254
AjnI	CCWGG	1 cut(s)	376
AluBI	AGCT	2 cut(s)	235, 500
AluI	AGCT	2 cut(s)	235, 500
AlwI	GGATC	2 cut(s)	124, 214
AoxI	GGCC	2 cut(s)	80, 169
ApoI	RAATTY	1 cut(s)	656
AspLEI	GCGC	1 cut(s)	512
AspS9I	GGNCC	1 cut(s)	170
BauI	CACGAG	1 cut(s)	620
BccI	CCATC	3 cut(s)	35, 231, 395
BcgI	CGANNNNNNTGC	2 cut(s)	549, 583
BciT130I	CCWGG	1 cut(s)	378
BclI	TGATCA	2 cut(s)	285, 487
BcuI	ACTAGT	1 cut(s)	254
BfaI	CTAG	2 cut(s)	255, 555
BfuAI	ACCTGC	1 cut(s)	283
Bme1390I	CCNGG	1 cut(s)	378
BmgT120I	GGNCC	1 cut(s)	170
BmiI	GGNNCC	1 cut(s)	172
BmrFI	CCNGG	1 cut(s)	378
BmsI	GCATC	2 cut(s)	442, 497
BpmI	CTGGAG	1 cut(s)	629
BpuEI	CTTGAG	1 cut(s)	110
BsaAI	YACGTR	1 cut(s)	239
Bse1I	ACTGG	1 cut(s)	644
Bse3DI	GCAATG	2 cut(s)	54, 594
BseBI	CCWGG	1 cut(s)	378
BseGI	GGATG	2 cut(s)	223, 538
BseMI	GCAATG	2 cut(s)	54, 594
BseMII	CTCAG	1 cut(s)	222
BseNI	ACTGG	1 cut(s)	644
BshFI	GGCC	2 cut(s)	82, 171
BsiSI	CCGG	1 cut(s)	74
BslFI	GGGAC	1 cut(s)	612
BsmFI	GGGAC	1 cut(s)	612
BsnI	GGCC	2 cut(s)	82, 171
Bsp143I	GATC	5 cut(s)	67, 129, 219, 285, 487
BspANI	GGCC	2 cut(s)	82, 171
BspCNI	CTCAG	1 cut(s)	223
BspHI	TCATGA	1 cut(s)	652
BspLI	GGNNCC	1 cut(s)	172
BspMI	ACCTGC	1 cut(s)	283
BspPI	GGATC	2 cut(s)	124, 214
BsrDI	GCAATG	2 cut(s)	54, 594
BsrI	ACTGG	1 cut(s)	644
BssMI	GATC	5 cut(s)	67, 129, 219, 285, 487
BssNAI	GTATAC	1 cut(s)	356
BssSI	CACGAG	1 cut(s)	620
Bst1107I	GTATAC	1 cut(s)	356
Bst2BI	CACGAG	1 cut(s)	620
Bst2UI	CCWGG	1 cut(s)	378
Bst4CI	ACNGT	1 cut(s)	590
BstBAI	YACGTR	1 cut(s)	239
BstC8I	GCNNGC	1 cut(s)	572
BstDEI	CTNAG	4 cut(s)	231, 391, 545, 600
BstF5I	GGATG	2 cut(s)	223, 538
BstHHI	GCGC	1 cut(s)	512
BstKTI	GATC	5 cut(s)	70, 132, 222, 288, 490
BstMBI	GATC	5 cut(s)	67, 129, 219, 285, 487
BstMWI	GCNNNNNNNGC	1 cut(s)	571
BstNI	CCWGG	1 cut(s)	378
BstNSI	RCATGY	1 cut(s)	519
BstSCI	CCNGG	1 cut(s)	376
BstSNI	TACGTA	1 cut(s)	239
BstX2I	RGATCY	1 cut(s)	129
BstYI	RGATCY	1 cut(s)	129
BstZ17I	GTATAC	1 cut(s)	356
BsuRI	GGCC	2 cut(s)	82, 171
BtsCI	GGATG	2 cut(s)	223, 538
BtsI	GCAGTG	1 cut(s)	336
BtsIMutI	CAGTG	2 cut(s)	336, 586
BveI	ACCTGC	1 cut(s)	283
Cac8I	GCNNGC	1 cut(s)	572
CciI	TCATGA	1 cut(s)	652
CfoI	GCGC	1 cut(s)	512
Cfr13I	GGNCC	1 cut(s)	170
CsiI	ACCWGGT	1 cut(s)	376
Csp6I	GTAC	2 cut(s)	381, 519
CviAII	CATG	7 cut(s)	54, 78, 449, 485, 516, 653, 666
CviJI	RGCY	6 cut(s)	31, 82, 171, 235, 500, 607
CviKI_1	RGCY	6 cut(s)	31, 82, 171, 235, 500, 607
CviQI	GTAC	2 cut(s)	381, 519
DdeI	CTNAG	4 cut(s)	231, 391, 545, 600
DpnI	GATC	5 cut(s)	69, 131, 221, 287, 489
DpnII	GATC	5 cut(s)	67, 129, 219, 285, 487
DraIII	CACNNNGTG	1 cut(s)	116
EaeI	YGGCCR	1 cut(s)	80
Eco105I	TACGTA	1 cut(s)	239
EcoRII	CCWGG	1 cut(s)	376
EcoT22I	ATGCAT	1 cut(s)	282
FaeI	CATG	7 cut(s)	57, 81, 452, 488, 519, 656, 669
FalI	AAGNNNNNCTT	2 cut(s)	342, 374
FaqI	GGGAC	1 cut(s)	612
FatI	CATG	7 cut(s)	53, 77, 448, 484, 515, 652, 665
FauNDI	CATATG	1 cut(s)	282
FbaI	TGATCA	2 cut(s)	285, 487
FblI	GTMKAC	1 cut(s)	355
FokI	GGATG	2 cut(s)	210, 545
FspBI	CTAG	2 cut(s)	255, 555
FspI	TGCGCA	1 cut(s)	511
GlaI	GCGC	1 cut(s)	511
GsuI	CTGGAG	1 cut(s)	629
HaeIII	GGCC	2 cut(s)	82, 171
HapII	CCGG	1 cut(s)	74
HhaI	GCGC	1 cut(s)	512
Hin1II	CATG	7 cut(s)	57, 81, 452, 488, 519, 656, 669
Hin6I	GCGC	1 cut(s)	510
HinP1I	GCGC	1 cut(s)	510
HinfI	GANTC	2 cut(s)	106, 363
HpaII	CCGG	1 cut(s)	74
Hpy166II	GTNNAC	3 cut(s)	356, 383, 551
Hpy188I	TCNGA	3 cut(s)	232, 322, 372
Hpy188III	TCNNGA	3 cut(s)	127, 217, 653
Hpy8I	GTNNAC	3 cut(s)	356, 383, 551
HpyAV	CCTTC	3 cut(s)	237, 282, 344
HpyCH4III	ACNGT	1 cut(s)	590
HpyCH4IV	ACGT	1 cut(s)	238
HpyCH4V	TGCA	7 cut(s)	47, 95, 265, 280, 448, 574, 594
HpyF10VI	GCNNNNNNNGC	1 cut(s)	571
HpyF3I	CTNAG	4 cut(s)	231, 391, 545, 600
HpySE526I	ACGT	1 cut(s)	238
Hsp92II	CATG	7 cut(s)	57, 81, 452, 488, 519, 656, 669
HspAI	GCGC	1 cut(s)	510
Ksp22I	TGATCA	2 cut(s)	285, 487
Kzo9I	GATC	5 cut(s)	67, 129, 219, 285, 487
LpnPI	CCDG	9 cut(s)	81, 87, 100, 278, 319, 363, 390, 593, 657
LweI	GCATC	2 cut(s)	442, 497
MabI	ACCWGGT	1 cut(s)	376
MaeI	CTAG	2 cut(s)	255, 555
MaeII	ACGT	1 cut(s)	238
MaeIII	GTNAC	2 cut(s)	458, 661
MalI	GATC	5 cut(s)	69, 131, 221, 287, 489
MboI	GATC	5 cut(s)	67, 129, 219, 285, 487
MboII	GAAGA	3 cut(s)	62, 194, 257
MfeI	CAATTG	1 cut(s)	426
MflI	RGATCY	1 cut(s)	129
MluCI	AATT	3 cut(s)	134, 426, 656
MlyI	GAGTC	1 cut(s)	357
MnlI	CCTC	4 cut(s)	134, 340, 408, 660
Mph1103I	ATGCAT	1 cut(s)	282
MseI	TTAA	5 cut(s)	177, 420, 438, 540, 673
MslI	CAYNNNNRTG	1 cut(s)	392
MspI	CCGG	1 cut(s)	74
MspR9I	CCNGG	1 cut(s)	378
MunI	CAATTG	1 cut(s)	426
MvaI	CCWGG	1 cut(s)	378
MwoI	GCNNNNNNNGC	1 cut(s)	571
NdeI	CATATG	1 cut(s)	282
NdeII	GATC	5 cut(s)	67, 129, 219, 285, 487
NlaIII	CATG	7 cut(s)	57, 81, 452, 488, 519, 656, 669
NlaIV	GGNNCC	1 cut(s)	172
NmuCI	GTSAC	1 cut(s)	458
NsbI	TGCGCA	1 cut(s)	511
NsiI	ATGCAT	1 cut(s)	282
NspI	RCATGY	1 cut(s)	519
PagI	TCATGA	1 cut(s)	652
PciI	ACATGT	1 cut(s)	515
PfeI	GAWTC	1 cut(s)	106
PleI	GAGTC	1 cut(s)	357
PpsI	GAGTC	1 cut(s)	357
Ppu21I	YACGTR	1 cut(s)	239
PscI	ACATGT	1 cut(s)	515
Psp6I	CCWGG	1 cut(s)	376
PspGI	CCWGG	1 cut(s)	376
PspN4I	GGNNCC	1 cut(s)	172
PspPI	GGNCC	1 cut(s)	170
PsuI	RGATCY	1 cut(s)	129
RsaI	GTAC	2 cut(s)	382, 520
RsaNI	GTAC	2 cut(s)	381, 519
RseI	CAYNNNNRTG	1 cut(s)	392
SaqAI	TTAA	5 cut(s)	177, 420, 438, 540, 673
Sau3AI	GATC	5 cut(s)	67, 129, 219, 285, 487
Sau96I	GGNCC	1 cut(s)	170
SchI	GAGTC	1 cut(s)	357
ScrFI	CCNGG	1 cut(s)	378
SexAI	ACCWGGT	1 cut(s)	376
SfaNI	GCATC	2 cut(s)	442, 497
SmiMI	CAYNNNNRTG	1 cut(s)	392
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
SnaBI	TACGTA	1 cut(s)	239
SpeI	ACTAGT	1 cut(s)	254
Sse9I	AATT	3 cut(s)	134, 426, 656
SspMI	CTAG	2 cut(s)	255, 555
StyD4I	CCNGG	1 cut(s)	376
TaaI	ACNGT	1 cut(s)	590
TaiI	ACGT	1 cut(s)	241
TaqI	TCGA	2 cut(s)	361, 559
TasI	AATT	3 cut(s)	134, 426, 656
TatI	WGTACW	1 cut(s)	518
TfiI	GAWTC	1 cut(s)	106
Tru1I	TTAA	5 cut(s)	177, 420, 438, 540, 673
Tru9I	TTAA	5 cut(s)	177, 420, 438, 540, 673
TscAI	CASTG	2 cut(s)	336, 593
TseFI	GTSAC	1 cut(s)	458
Tsp45I	GTSAC	1 cut(s)	458
TspDTI	ATGAA	4 cut(s)	258, 572, 629, 669
TspRI	CASTG	2 cut(s)	336, 593
XapI	RAATTY	1 cut(s)	656
XceI	RCATGY	1 cut(s)	519
XmiI	GTMKAC	1 cut(s)	355
XspI	CTAG	2 cut(s)	255, 555
Zsp2I	ATGCAT	1 cut(s)	282

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