Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0009754

Physical Location & Seq

Genomic Coordinates Reverse (-)

28841349 .. 28846510

Gene Structure 5162 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG286000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGCAAGGATTTGTCAAATAGAATTTGGTTCAGAATCGAGATGGAAGAATTTGAAGTTGGATCGAGGAGAAGAAGATAATCGAATAGCAGGGGCGGATCCAGGATCCGAACATGGCACCAGCATGGAGAAAATTCTTTCGAGGTATCACAATTTTTCAAACAAGCAGGGCCTCCTCCAATTAGAGTATTCTTCAGAAGAGCCCCCCCATGAATCTGCTGAAGAGGAGCAGAGATTTGATTCAAGCGCACTGCAGAGAAAATTTGAAGCAATGCAGCAAAAGATTGAAGCATTACAGTTGGAACTCTGTCGGATGAAGGGTCAGAAACTGGATGGCCTGAGCTTAAATGACCTGTATGAGCTGGAGAAACAACAAATGGAAGGGGAATTAGCCGTTAAGAACAAGAAGGAGGAAATACTTTCGGAGGAGAAACAGAAGACTACAAAGGAGCATGAGAAGGCTATGCAAAAGATTGAGAATCTGGAAAGAGAGATTGAGGAATTGAGGAGGCAAAACTATGTGCGCCCTTCTATCATTGAATCCCATCCTCCTAAGAAGAGGCTTTTATACTTTACAAACTCATCCAAAGCCGTTTCCAATTGTTCAACTGCCTCTGAGCACGAAAGTGACGAGCATTCGGACACTTCTTTGCAATTGGGGTTGTCATCATCCAAGTGTTGGTCAGTGCAAGAGGAAAGAAGCCAGCATTCGTCCCAGTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009555 GO:0009889 GO:0009909 GO:0009910 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0048229 GO:0048519 GO:0048577 GO:0048580 GO:0048581 GO:0048583 GO:0048585 GO:0048587 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051171 GO:0051239 GO:0051241 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000026 GO:2000028 GO:2000112 GO:2000241 GO:2000242 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04013 ko04022 ko04371 ko05418 map04013 map04022 map04371 map05418

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

240

Amino Acids

27.81

Weight (kDa)

5.43

Isoelectric Point (pI)

70.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
K-box	PF01486	80 - 165	5.7e-07	K-box region

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

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Orthologous Genes (Group: OG0009754)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G57390 AT3G57390 AT3G57390
fragaria_vesca	FvH4_4g20680 FvH4_4g20680
malus_domestica	MD00G1106300.v1.1
prunus_persica	Prupe.7G055900_v2.0.a1 Prupe.7G055900_v2.0.a1 Prupe.7G055900_v2.0.a1
pyrus_communis	pycom14g06350
rosa_chinensis	RchiOBHm_Chr3g0483031
rosa_laevigata	RLG00000023305
rosa_multiflora	Rmu_sc0000441.1_g000133
rosa_roxburghii	Rroxscaffold_6G00398700
rosa_rugosa	Rorug03G0203800 Rorug03G0203900
rosa_samantha	Rh3AG251800 Rh3BG288400 Rh3CG286000 Rh3DG281600
rosa_wichuraiana	Rw3G022780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	116
AccB7I	CCANNNNNTGG	1 cut(s)	678
AciI	CCGC	1 cut(s)	95
AclWI	GGATC	5 cut(s)	69, 92, 99, 105, 112
AcsI	RAATTY	4 cut(s)	23, 49, 132, 260
AcuI	CTGAAG	2 cut(s)	177, 240
AfiI	CCNNNNNNNGG	1 cut(s)	678
AgsI	TTSAA	7 cut(s)	55, 159, 243, 266, 287, 539, 606
AjnI	CCWGG	1 cut(s)	100
AjuI	GAANNNNNNNTTGG	2 cut(s)	41, 73
AleI	CACNNNNGTG	1 cut(s)	624
AluBI	AGCT	2 cut(s)	342, 361
AluI	AGCT	2 cut(s)	342, 361
Alw21I	GWGCWC	1 cut(s)	621
AlwI	GGATC	5 cut(s)	69, 92, 99, 105, 112
AlwNI	CAGNNNCTG	1 cut(s)	328
AoxI	GGCC	2 cut(s)	169, 334
ApeKI	GCWGC	1 cut(s)	274
ApoI	RAATTY	4 cut(s)	23, 49, 132, 260
AspLEI	GCGC	2 cut(s)	248, 525
AspS9I	GGNCC	1 cut(s)	169
BamHI	GGATCC	2 cut(s)	97, 104
BanI	GGYRCC	1 cut(s)	116
BanII	GRGCYC	1 cut(s)	204
BbsI	GAAGAC	1 cut(s)	443
Bbv12I	GWGCWC	1 cut(s)	621
BbvI	GCAGC	1 cut(s)	286
BccI	CCATC	3 cut(s)	36, 326, 552
BceAI	ACGGC	2 cut(s)	377, 575
BciT130I	CCWGG	1 cut(s)	102
BfmI	CTRYAG	1 cut(s)	251
BisI	GCNGC	1 cut(s)	275
BlsI	GCNGC	1 cut(s)	276
Bme1390I	CCNGG	1 cut(s)	102
BmgT120I	GGNCC	1 cut(s)	169
BmiI	GGNNCC	3 cut(s)	99, 106, 118
BmrFI	CCNGG	1 cut(s)	102
BmrI	ACTGGG	1 cut(s)	709
BmuI	ACTGGG	1 cut(s)	709
BpiI	GAAGAC	1 cut(s)	443
BpmI	CTGGAG	1 cut(s)	383
Bpu10I	CCTNAGC	1 cut(s)	338
Bsc4I	CCNNNNNNNGG	1 cut(s)	678
Bse1I	ACTGG	2 cut(s)	333, 715
Bse3DI	GCAATG	1 cut(s)	276
BseBI	CCWGG	1 cut(s)	102
BseGI	GGATG	5 cut(s)	318, 337, 544, 581, 668
BseLI	CCNNNNNNNGG	1 cut(s)	678
BseMI	GCAATG	1 cut(s)	276
BseMII	CTCAG	2 cut(s)	329, 606
BseNI	ACTGG	2 cut(s)	333, 715
BseRI	GAGGAG	5 cut(s)	81, 164, 239, 440, 520
BseXI	GCAGC	1 cut(s)	286
BshFI	GGCC	2 cut(s)	171, 336
BshNI	GGYRCC	1 cut(s)	116
BsiHKAI	GWGCWC	1 cut(s)	621
BslFI	GGGAC	1 cut(s)	697
BslI	CCNNNNNNNGG	1 cut(s)	678
BsmFI	GGGAC	1 cut(s)	697
BsmI	GAATGC	2 cut(s)	634, 706
BsnI	GGCC	2 cut(s)	171, 336
Bsp1286I	GDGCHC	2 cut(s)	204, 621
Bsp143I	GATC	3 cut(s)	61, 97, 104
BspACI	CCGC	1 cut(s)	95
BspANI	GGCC	2 cut(s)	171, 336
BspCNI	CTCAG	2 cut(s)	330, 607
BspLI	GGNNCC	3 cut(s)	99, 106, 118
BspMAI	CTGCAG	1 cut(s)	255
BspPI	GGATC	5 cut(s)	69, 92, 99, 105, 112
BspQI	GCTCTTC	1 cut(s)	192
BspT107I	GGYRCC	1 cut(s)	116
BsrDI	GCAATG	1 cut(s)	276
BsrI	ACTGG	2 cut(s)	333, 715
BssMI	GATC	3 cut(s)	61, 97, 104
Bst2UI	CCWGG	1 cut(s)	102
Bst4CI	ACNGT	1 cut(s)	297
Bst6I	CTCTTC	3 cut(s)	192, 216, 551
BstC8I	GCNNGC	1 cut(s)	704
BstDEI	CTNAG	3 cut(s)	338, 552, 615
BstF5I	GGATG	5 cut(s)	318, 337, 544, 581, 668
BstHHI	GCGC	2 cut(s)	248, 525
BstKTI	GATC	3 cut(s)	64, 100, 107
BstMBI	GATC	3 cut(s)	61, 97, 104
BstNI	CCWGG	1 cut(s)	102
BstSCI	CCNGG	1 cut(s)	100
BstSFI	CTRYAG	1 cut(s)	251
BstV1I	GCAGC	1 cut(s)	286
BstV2I	GAAGAC	1 cut(s)	443
BstX2I	RGATCY	2 cut(s)	97, 104
BstYI	RGATCY	2 cut(s)	97, 104
BsuRI	GGCC	2 cut(s)	171, 336
BtsCI	GGATG	5 cut(s)	318, 337, 544, 581, 668
BtsI	GCAGTG	1 cut(s)	248
BtsIMutI	CAGTG	2 cut(s)	248, 690
Cac8I	GCNNGC	1 cut(s)	704
CaiI	CAGNNNCTG	1 cut(s)	328
CfoI	GCGC	2 cut(s)	248, 525
Cfr13I	GGNCC	1 cut(s)	169
CviAII	CATG	4 cut(s)	113, 124, 209, 452
DdeI	CTNAG	3 cut(s)	338, 552, 615
DpnI	GATC	3 cut(s)	63, 99, 106
DpnII	GATC	3 cut(s)	61, 97, 104
Eam1104I	CTCTTC	3 cut(s)	192, 216, 551
EarI	CTCTTC	3 cut(s)	192, 216, 551
EciI	GGCGGA	1 cut(s)	110
Eco24I	GRGCYC	1 cut(s)	204
Eco57I	CTGAAG	2 cut(s)	177, 240
EcoO109I	RGGNCCY	1 cut(s)	169
EcoRII	CCWGG	1 cut(s)	100
EcoT38I	GRGCYC	1 cut(s)	204
FaeI	CATG	4 cut(s)	116, 127, 212, 455
FaiI	YATR	8 cut(s)	114, 125, 210, 357, 453, 464, 519, 568
FaqI	GGGAC	1 cut(s)	697
FatI	CATG	4 cut(s)	112, 123, 208, 451
Fnu4HI	GCNGC	1 cut(s)	275
FokI	GGATG	5 cut(s)	325, 344, 531, 568, 655
FriOI	GRGCYC	1 cut(s)	204
Fsp4HI	GCNGC	1 cut(s)	275
GlaI	GCGC	2 cut(s)	247, 524
GluI	GCNGC	1 cut(s)	275
GsuI	CTGGAG	1 cut(s)	383
HaeIII	GGCC	2 cut(s)	171, 336
HhaI	GCGC	2 cut(s)	248, 525
Hin1II	CATG	4 cut(s)	116, 127, 212, 455
Hin6I	GCGC	2 cut(s)	246, 523
HinP1I	GCGC	2 cut(s)	246, 523
HinfI	GANTC	5 cut(s)	35, 212, 239, 478, 539
Hpy188I	TCNGA	8 cut(s)	34, 109, 196, 312, 324, 424, 616, 640
Hpy188III	TCNNGA	2 cut(s)	39, 482
HpyAV	CCTTC	5 cut(s)	310, 374, 400, 451, 537
HpyCH4III	ACNGT	1 cut(s)	297
HpyCH4V	TGCA	5 cut(s)	253, 274, 466, 652, 688
HpyF3I	CTNAG	3 cut(s)	338, 552, 615
Hsp92II	CATG	4 cut(s)	116, 127, 212, 455
HspAI	GCGC	2 cut(s)	246, 523
Kzo9I	GATC	3 cut(s)	61, 97, 104
LguI	GCTCTTC	1 cut(s)	192
LmnI	GCTCC	2 cut(s)	226, 448
Lsp1109I	GCAGC	1 cut(s)	286
MaeIII	GTNAC	1 cut(s)	626
MalI	GATC	3 cut(s)	63, 99, 106
MboI	GATC	3 cut(s)	61, 97, 104
MboII	GAAGA	8 cut(s)	58, 83, 86, 183, 209, 233, 448, 568
MfeI	CAATTG	2 cut(s)	598, 653
MflI	RGATCY	2 cut(s)	97, 104
MhlI	GDGCHC	2 cut(s)	204, 621
MmeI	TCCRAC	3 cut(s)	39, 279, 290
MseI	TTAA	2 cut(s)	344, 396
MslI	CAYNNNNRTG	3 cut(s)	122, 624, 673
MspR9I	CCNGG	1 cut(s)	102
MunI	CAATTG	2 cut(s)	598, 653
Mva1269I	GAATGC	2 cut(s)	634, 706
MvaI	CCWGG	1 cut(s)	102
NdeII	GATC	3 cut(s)	61, 97, 104
NlaIII	CATG	4 cut(s)	116, 127, 212, 455
NlaIV	GGNNCC	3 cut(s)	99, 106, 118
NmuCI	GTSAC	1 cut(s)	626
OliI	CACNNNNGTG	1 cut(s)	624
PciSI	GCTCTTC	1 cut(s)	192
PcsI	WCGNNNNNNNCGW	1 cut(s)	627
PctI	GAATGC	2 cut(s)	634, 706
PfeI	GAWTC	5 cut(s)	35, 212, 239, 478, 539
PflMI	CCANNNNNTGG	1 cut(s)	678
PfoI	TCCNGGA	1 cut(s)	100
PkrI	GCNGC	1 cut(s)	276
Psp6I	CCWGG	1 cut(s)	100
PspGI	CCWGG	1 cut(s)	100
PspN4I	GGNNCC	3 cut(s)	99, 106, 118
PspPI	GGNCC	1 cut(s)	169
PstI	CTGCAG	1 cut(s)	255
PstNI	CAGNNNCTG	1 cut(s)	328
PsuI	RGATCY	2 cut(s)	97, 104
RseI	CAYNNNNRTG	3 cut(s)	122, 624, 673
SapI	GCTCTTC	1 cut(s)	192
SaqAI	TTAA	2 cut(s)	344, 396
SatI	GCNGC	1 cut(s)	275
Sau3AI	GATC	3 cut(s)	61, 97, 104
Sau96I	GGNCC	1 cut(s)	169
ScrFI	CCNGG	1 cut(s)	102
SduI	GDGCHC	2 cut(s)	204, 621
SetI	ASST	4 cut(s)	146, 344, 354, 363
SfcI	CTRYAG	1 cut(s)	251
SmiMI	CAYNNNNRTG	3 cut(s)	122, 624, 673
SsiI	CCGC	1 cut(s)	95
StyD4I	CCNGG	1 cut(s)	100
TaaI	ACNGT	1 cut(s)	297
TaqI	TCGA	4 cut(s)	38, 64, 82, 140
TfiI	GAWTC	5 cut(s)	35, 212, 239, 478, 539
Tru1I	TTAA	2 cut(s)	344, 396
Tru9I	TTAA	2 cut(s)	344, 396
TscAI	CASTG	2 cut(s)	255, 690
TseFI	GTSAC	1 cut(s)	626
TseI	GCWGC	1 cut(s)	274
Tsp45I	GTSAC	1 cut(s)	626
TspDTI	ATGAA	2 cut(s)	225, 329
TspRI	CASTG	2 cut(s)	255, 690
Van91I	CCANNNNNTGG	1 cut(s)	678
XapI	RAATTY	4 cut(s)	23, 49, 132, 260

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