Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0009754

Physical Location & Seq

Genomic Coordinates Reverse (-)

28793757 .. 28796352

Gene Structure 2596 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG288400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 732 bp

ATGGGTCGGGGGAAAATTGAGATCAAGAAGATTGAAAATCTCAGTAGCAGGCAAGTCACGTTCTCGAAACGCCGCAGCGGATTGTTCAAGAAGGCAGCCGAATTGTCAGTACTATGCGATGCCGAGATTGCAGTCATAATTTTTTCTCAAACTGGAAAGCTTTATGAACAATCAAGCACCAGCATGGAGAAAATTCTTTCGAGGTATCACAATTTTTCAAACAAGCAGGGCCTCCTCCAATTAGAGTATTCTTCAGAAGAGCGCCCCCATGAATCGGCTCATGAAGAGGAGCCGAAATTTGATTCAAGCGCACTGCAGAGAAAATTTGAAGCAATGCAGCAAAAGATTGAAGCATTACAGTTGGAACTCTGTCGGATGAAGGGTCAGAAACTGGATGGGCTGAGCTTAAATGAACTGTATGAGCTGGAGAAACAACAAATGGAAGGGGAATTAGCTGTTAAGAATAAGAAGGAGGAAATACTTTCGGAGGAGAAACAGAAGACTACAAAGGAGCATGAGAAGGCTATGCAGAAGATTGAGAATCTGGAAAGAGAGATTGAGGAATTGAGGAGGCAAAACTATGTGCGCCCATCTATCATTGAATCCCATCCTCCTAAGAAGAGGCTTTTATACTTTACAAACTCATCCAAAGCCGTTTCCAATTGTTCAACTGCCTCTGAGCACGAAAGTGACGAGCATTCGGACACTTCTTTGCAATTGGGGTACGTATAA

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

243

Amino Acids

28.12

Weight (kDa)

6.43

Isoelectric Point (pI)

67.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 56	5e-26	SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box	PF01486	102 - 186	5e-07	K-box region

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

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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)
AciI	CCGC	2 cut(s)	73, 78
AcsI	RAATTY	3 cut(s)	192, 296, 323
AcuI	CTGAAG	1 cut(s)	237
AfaI	GTAC	2 cut(s)	111, 725
AfiI	CCNNNNNNNGG	1 cut(s)	274
AgsI	TTSAA	8 cut(s)	35, 88, 219, 306, 329, 350, 602, 669
AleI	CACNNNNGTG	1 cut(s)	687
AluBI	AGCT	4 cut(s)	160, 405, 424, 455
AluI	AGCT	4 cut(s)	160, 405, 424, 455
Alw21I	GWGCWC	1 cut(s)	684
AlwNI	CAGNNNCTG	1 cut(s)	391
AoxI	GGCC	1 cut(s)	229
ApeKI	GCWGC	3 cut(s)	75, 95, 337
ApoI	RAATTY	3 cut(s)	192, 296, 323
AspLEI	GCGC	3 cut(s)	264, 311, 588
AspS9I	GGNCC	1 cut(s)	229
BbsI	GAAGAC	1 cut(s)	506
Bbv12I	GWGCWC	1 cut(s)	684
BbvI	GCAGC	3 cut(s)	87, 107, 349
BccI	CCATC	3 cut(s)	389, 598, 615
BceAI	ACGGC	1 cut(s)	638
BfmI	CTRYAG	1 cut(s)	314
BfoI	RGCGCY	1 cut(s)	265
BisI	GCNGC	4 cut(s)	73, 76, 96, 338
BlpI	GCTNAGC	1 cut(s)	401
BlsI	GCNGC	4 cut(s)	74, 77, 97, 339
BmcAI	AGTACT	1 cut(s)	111
BmgT120I	GGNCC	1 cut(s)	229
BmiI	GGNNCC	1 cut(s)	291
BmsI	GCATC	1 cut(s)	109
BpiI	GAAGAC	1 cut(s)	506
BpmI	CTGGAG	1 cut(s)	446
Bpu1102I	GCTNAGC	1 cut(s)	401
BsaAI	YACGTR	1 cut(s)	727
Bsc4I	CCNNNNNNNGG	1 cut(s)	274
Bse1I	ACTGG	2 cut(s)	157, 396
Bse3DI	GCAATG	1 cut(s)	339
BseGI	GGATG	4 cut(s)	381, 400, 607, 644
BseLI	CCNNNNNNNGG	1 cut(s)	274
BseMI	GCAATG	1 cut(s)	339
BseMII	CTCAG	3 cut(s)	55, 392, 669
BseNI	ACTGG	2 cut(s)	157, 396
BseRI	GAGGAG	4 cut(s)	224, 302, 503, 583
BseXI	GCAGC	3 cut(s)	87, 107, 349
BshFI	GGCC	1 cut(s)	231
BsiHKAI	GWGCWC	1 cut(s)	684
BslI	CCNNNNNNNGG	1 cut(s)	274
BsmI	GAATGC	1 cut(s)	697
BsnI	GGCC	1 cut(s)	231
Bsp1286I	GDGCHC	1 cut(s)	684
Bsp143I	GATC	1 cut(s)	21
Bsp1720I	GCTNAGC	1 cut(s)	401
BspACI	CCGC	2 cut(s)	73, 78
BspANI	GGCC	1 cut(s)	231
BspCNI	CTCAG	3 cut(s)	54, 393, 670
BspHI	TCATGA	1 cut(s)	280
BspLI	GGNNCC	1 cut(s)	291
BspMAI	CTGCAG	1 cut(s)	318
BspQI	GCTCTTC	1 cut(s)	252
BsrDI	GCAATG	1 cut(s)	339
BsrI	ACTGG	2 cut(s)	157, 396
BssMI	GATC	1 cut(s)	21
Bst4CI	ACNGT	2 cut(s)	360, 417
Bst6I	CTCTTC	3 cut(s)	252, 279, 614
BstBAI	YACGTR	1 cut(s)	727
BstC8I	GCNNGC	1 cut(s)	50
BstDEI	CTNAG	4 cut(s)	41, 401, 615, 678
BstF5I	GGATG	4 cut(s)	381, 400, 607, 644
BstH2I	RGCGCY	1 cut(s)	265
BstHHI	GCGC	3 cut(s)	264, 311, 588
BstKTI	GATC	1 cut(s)	24
BstMBI	GATC	1 cut(s)	21
BstMWI	GCNNNNNNNGC	1 cut(s)	128
BstSFI	CTRYAG	1 cut(s)	314
BstSNI	TACGTA	1 cut(s)	727
BstV1I	GCAGC	3 cut(s)	87, 107, 349
BstV2I	GAAGAC	1 cut(s)	506
BsuRI	GGCC	1 cut(s)	231
BtgZI	GCGATG	1 cut(s)	132
BtsCI	GGATG	4 cut(s)	381, 400, 607, 644
BtsI	GCAGTG	1 cut(s)	311
BtsIMutI	CAGTG	1 cut(s)	311
Cac8I	GCNNGC	1 cut(s)	50
CaiI	CAGNNNCTG	1 cut(s)	391
CciI	TCATGA	1 cut(s)	280
CfoI	GCGC	3 cut(s)	264, 311, 588
Cfr13I	GGNCC	1 cut(s)	229
Csp6I	GTAC	2 cut(s)	110, 724
CviAII	CATG	4 cut(s)	184, 269, 281, 515
CviQI	GTAC	2 cut(s)	110, 724
DdeI	CTNAG	4 cut(s)	41, 401, 615, 678
DpnI	GATC	1 cut(s)	23
DpnII	GATC	1 cut(s)	21
Eam1104I	CTCTTC	3 cut(s)	252, 279, 614
EarI	CTCTTC	3 cut(s)	252, 279, 614
Eco105I	TACGTA	1 cut(s)	727
Eco57I	CTGAAG	1 cut(s)	237
EcoO109I	RGGNCCY	1 cut(s)	229
FaeI	CATG	4 cut(s)	187, 272, 284, 518
FatI	CATG	4 cut(s)	183, 268, 280, 514
Fnu4HI	GCNGC	4 cut(s)	73, 76, 96, 338
FokI	GGATG	4 cut(s)	388, 407, 594, 631
Fsp4HI	GCNGC	4 cut(s)	73, 76, 96, 338
GlaI	GCGC	3 cut(s)	263, 310, 587
GluI	GCNGC	4 cut(s)	73, 76, 96, 338
GsuI	CTGGAG	1 cut(s)	446
HaeII	RGCGCY	1 cut(s)	265
HaeIII	GGCC	1 cut(s)	231
HhaI	GCGC	3 cut(s)	264, 311, 588
Hin1II	CATG	4 cut(s)	187, 272, 284, 518
Hin6I	GCGC	3 cut(s)	262, 309, 586
HinP1I	GCGC	3 cut(s)	262, 309, 586
HindIII	AAGCTT	1 cut(s)	158
HinfI	GANTC	4 cut(s)	272, 302, 541, 602
Hpy188I	TCNGA	6 cut(s)	256, 375, 387, 487, 679, 703
Hpy188III	TCNNGA	5 cut(s)	25, 64, 88, 281, 545
HpyAV	CCTTC	5 cut(s)	85, 373, 437, 463, 514
HpyCH4III	ACNGT	2 cut(s)	360, 417
HpyCH4IV	ACGT	2 cut(s)	59, 726
HpyCH4V	TGCA	5 cut(s)	131, 316, 337, 529, 715
HpyF10VI	GCNNNNNNNGC	1 cut(s)	128
HpyF3I	CTNAG	4 cut(s)	41, 401, 615, 678
HpySE526I	ACGT	2 cut(s)	59, 726
Hsp92II	CATG	4 cut(s)	187, 272, 284, 518
HspAI	GCGC	3 cut(s)	262, 309, 586
Kzo9I	GATC	1 cut(s)	21
LguI	GCTCTTC	1 cut(s)	252
LmnI	GCTCC	2 cut(s)	289, 511
LpnPI	CCDG	7 cut(s)	34, 138, 193, 212, 377, 410, 530
Lsp1109I	GCAGC	3 cut(s)	87, 107, 349
LweI	GCATC	1 cut(s)	109
MaeII	ACGT	2 cut(s)	59, 726
MaeIII	GTNAC	2 cut(s)	55, 689
MalI	GATC	1 cut(s)	23
MboI	GATC	1 cut(s)	21
MboII	GAAGA	7 cut(s)	40, 243, 269, 296, 511, 544, 631
MfeI	CAATTG	2 cut(s)	661, 716
MhlI	GDGCHC	1 cut(s)	684
MmeI	TCCRAC	2 cut(s)	342, 353
MseI	TTAA	2 cut(s)	407, 459
MslI	CAYNNNNRTG	2 cut(s)	182, 687
MspA1I	CMGCKG	1 cut(s)	78
MunI	CAATTG	2 cut(s)	661, 716
Mva1269I	GAATGC	1 cut(s)	697
MwoI	GCNNNNNNNGC	1 cut(s)	128
NdeII	GATC	1 cut(s)	21
NlaIII	CATG	4 cut(s)	187, 272, 284, 518
NlaIV	GGNNCC	1 cut(s)	291
NmeAIII	GCCGAG	1 cut(s)	148
NmuCI	GTSAC	2 cut(s)	55, 689
OliI	CACNNNNGTG	1 cut(s)	687
PagI	TCATGA	1 cut(s)	280
PciSI	GCTCTTC	1 cut(s)	252
PcsI	WCGNNNNNNNCGW	1 cut(s)	690
PctI	GAATGC	1 cut(s)	697
PfeI	GAWTC	4 cut(s)	272, 302, 541, 602
PkrI	GCNGC	4 cut(s)	74, 77, 97, 339
Ppu21I	YACGTR	1 cut(s)	727
PspN4I	GGNNCC	1 cut(s)	291
PspPI	GGNCC	1 cut(s)	229
PstI	CTGCAG	1 cut(s)	318
PstNI	CAGNNNCTG	1 cut(s)	391
RsaI	GTAC	2 cut(s)	111, 725
RsaNI	GTAC	2 cut(s)	110, 724
RseI	CAYNNNNRTG	2 cut(s)	182, 687
SapI	GCTCTTC	1 cut(s)	252
SaqAI	TTAA	2 cut(s)	407, 459
SatI	GCNGC	4 cut(s)	73, 76, 96, 338
Sau3AI	GATC	1 cut(s)	21
Sau96I	GGNCC	1 cut(s)	229
ScaI	AGTACT	1 cut(s)	111
SduI	GDGCHC	1 cut(s)	684
SetI	ASST	7 cut(s)	62, 162, 206, 407, 426, 457, 729
SfaNI	GCATC	1 cut(s)	109
SfcI	CTRYAG	1 cut(s)	314
SmiMI	CAYNNNNRTG	2 cut(s)	182, 687
SnaBI	TACGTA	1 cut(s)	727
SsiI	CCGC	2 cut(s)	73, 78
TaaI	ACNGT	2 cut(s)	360, 417
TaiI	ACGT	2 cut(s)	62, 729
TaqI	TCGA	2 cut(s)	65, 200
TatI	WGTACW	1 cut(s)	109
TauI	GCSGC	1 cut(s)	75
TfiI	GAWTC	4 cut(s)	272, 302, 541, 602
Tru1I	TTAA	2 cut(s)	407, 459
Tru9I	TTAA	2 cut(s)	407, 459
TscAI	CASTG	1 cut(s)	318
TseFI	GTSAC	2 cut(s)	55, 689
TseI	GCWGC	3 cut(s)	75, 95, 337
Tsp45I	GTSAC	2 cut(s)	55, 689
TspDTI	ATGAA	5 cut(s)	180, 285, 297, 392, 426
TspRI	CASTG	1 cut(s)	318
XapI	RAATTY	3 cut(s)	192, 296, 323
ZrmI	AGTACT	1 cut(s)	111

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