Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0009754

Physical Location & Seq

Genomic Coordinates Reverse (-)

27179954 .. 27183040

Gene Structure 3087 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG251800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGTTGGGGAACGATACAGAACGAAACTCACAGACCAGAAAGATGGGTCGGGGGAAAATTGAGATCAAGAAGATTGAAAATCTCAGTAGCAGGCAAGTCACGTTCTCAAAACGCCGCAGCGGATTGTTCAAGAAGGCAGCCGAATTGTCAGTACTATGCGATGCCGAGATTGCAGTCATAATTTTTTCTCAAACTGGAAAGCTTTATGAACAATCAAGCACCAGCATGGAGAAAATTCTTTCTAGGTATCACAATTTTTCAAACAAGCAGGGCCTCCTCCAATTAGAGTATTCTTCAGAAGAGCGCCCCCATGAATCTGCTGAAGAGGATCTGAAATTTGATTCAAGCGTACTGCAGAGAAAATTTGAAGCAATGCAGCAAAAGATTGAAGCATTACAGTTGGAACTCTGTCGGATGAAGGGTCAGAAACTGGATGGGCTGAGCTTAAATGACCTGTATGAGCTGGAGAAACAACAAATGGAAGGGGAATTAGCTGTTAAGAACAAGAAGGAGGAAATACTTTCGGAGGAGAAACAGAAGACTACAAAGGAGCATGAGAAGGCTATGCAAAAGATTGAGAATCTGGAAAGAGAGATTGAGGAATTGAGGAGGCAAAACTATGTGCGCCCTTCTATCATTGAATCCCATCCTCCTAAGAAGAGGCTTTTATACTTTACAAACTCATCCAAAGCCGTTTCCAATTGTTCAACTGCCTCTGAGCACGAAAGTGACGAGCATTCGGACACTTCTTTGCAATTGGGGTTGTCATCATCCAAGTGTTGGTCAGTGCAAGAGGAAAGAAGCCAGCATTCGCCCCAGTTCTAA

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

274

Amino Acids

31.7

Weight (kDa)

6.69

Isoelectric Point (pI)

70.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	24 - 70	6.1e-26	SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box	PF01486	117 - 199	1.4e-06	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)

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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)
AccB7I	CCANNNNNTGG	1 cut(s)	780
AciI	CCGC	2 cut(s)	115, 120
AclWI	GGATC	1 cut(s)	336
AcsI	RAATTY	3 cut(s)	234, 335, 362
AcuI	CTGAAG	2 cut(s)	279, 342
AfaI	GTAC	2 cut(s)	153, 351
AfiI	CCNNNNNNNGG	1 cut(s)	780
AgsI	TTSAA	8 cut(s)	77, 130, 261, 345, 368, 389, 641, 708
AleI	CACNNNNGTG	1 cut(s)	726
AluBI	AGCT	4 cut(s)	202, 444, 463, 494
AluI	AGCT	4 cut(s)	202, 444, 463, 494
Alw21I	GWGCWC	1 cut(s)	723
AlwI	GGATC	1 cut(s)	336
AlwNI	CAGNNNCTG	1 cut(s)	430
AoxI	GGCC	1 cut(s)	271
ApeKI	GCWGC	3 cut(s)	117, 137, 376
ApoI	RAATTY	3 cut(s)	234, 335, 362
AspLEI	GCGC	2 cut(s)	306, 627
AspS9I	GGNCC	1 cut(s)	271
BbsI	GAAGAC	1 cut(s)	545
Bbv12I	GWGCWC	1 cut(s)	723
BbvI	GCAGC	3 cut(s)	129, 149, 388
BccI	CCATC	3 cut(s)	37, 428, 654
BceAI	ACGGC	1 cut(s)	677
BfaI	CTAG	1 cut(s)	243
BfmI	CTRYAG	1 cut(s)	353
BfoI	RGCGCY	1 cut(s)	307
BisI	GCNGC	4 cut(s)	115, 118, 138, 377
BlpI	GCTNAGC	1 cut(s)	440
BlsI	GCNGC	4 cut(s)	116, 119, 139, 378
BmcAI	AGTACT	1 cut(s)	153
BmgT120I	GGNCC	1 cut(s)	271
BmrI	ACTGGG	1 cut(s)	811
BmsI	GCATC	1 cut(s)	151
BmuI	ACTGGG	1 cut(s)	811
BpiI	GAAGAC	1 cut(s)	545
BpmI	CTGGAG	1 cut(s)	485
Bpu1102I	GCTNAGC	1 cut(s)	440
Bsc4I	CCNNNNNNNGG	1 cut(s)	780
Bse1I	ACTGG	3 cut(s)	199, 435, 817
Bse3DI	GCAATG	1 cut(s)	378
BseGI	GGATG	5 cut(s)	420, 439, 646, 683, 770
BseLI	CCNNNNNNNGG	1 cut(s)	780
BseMI	GCAATG	1 cut(s)	378
BseMII	CTCAG	3 cut(s)	97, 431, 708
BseNI	ACTGG	3 cut(s)	199, 435, 817
BseRI	GAGGAG	3 cut(s)	266, 542, 622
BseXI	GCAGC	3 cut(s)	129, 149, 388
BshFI	GGCC	1 cut(s)	273
BsiHKAI	GWGCWC	1 cut(s)	723
BslI	CCNNNNNNNGG	1 cut(s)	780
BsmI	GAATGC	2 cut(s)	736, 808
BsnI	GGCC	1 cut(s)	273
Bsp1286I	GDGCHC	1 cut(s)	723
Bsp143I	GATC	2 cut(s)	63, 328
Bsp1720I	GCTNAGC	1 cut(s)	440
BspACI	CCGC	2 cut(s)	115, 120
BspANI	GGCC	1 cut(s)	273
BspCNI	CTCAG	3 cut(s)	96, 432, 709
BspMAI	CTGCAG	1 cut(s)	357
BspPI	GGATC	1 cut(s)	336
BspQI	GCTCTTC	1 cut(s)	294
BsrDI	GCAATG	1 cut(s)	378
BsrI	ACTGG	3 cut(s)	199, 435, 817
BssMI	GATC	2 cut(s)	63, 328
Bst4CI	ACNGT	1 cut(s)	399
Bst6I	CTCTTC	3 cut(s)	294, 318, 653
BstC8I	GCNNGC	2 cut(s)	92, 806
BstDEI	CTNAG	4 cut(s)	83, 440, 654, 717
BstF5I	GGATG	5 cut(s)	420, 439, 646, 683, 770
BstH2I	RGCGCY	1 cut(s)	307
BstHHI	GCGC	2 cut(s)	306, 627
BstKTI	GATC	2 cut(s)	66, 331
BstMBI	GATC	2 cut(s)	63, 328
BstMWI	GCNNNNNNNGC	1 cut(s)	170
BstSFI	CTRYAG	1 cut(s)	353
BstV1I	GCAGC	3 cut(s)	129, 149, 388
BstV2I	GAAGAC	1 cut(s)	545
BstX2I	RGATCY	1 cut(s)	328
BstXI	CCANNNNNNTGG	1 cut(s)	43
BstYI	RGATCY	1 cut(s)	328
BsuRI	GGCC	1 cut(s)	273
BtgZI	GCGATG	1 cut(s)	174
BtsCI	GGATG	5 cut(s)	420, 439, 646, 683, 770
BtsIMutI	CAGTG	1 cut(s)	792
Cac8I	GCNNGC	2 cut(s)	92, 806
CaiI	CAGNNNCTG	1 cut(s)	430
CfoI	GCGC	2 cut(s)	306, 627
Cfr13I	GGNCC	1 cut(s)	271
Csp6I	GTAC	2 cut(s)	152, 350
CviAII	CATG	3 cut(s)	226, 311, 554
CviQI	GTAC	2 cut(s)	152, 350
DdeI	CTNAG	4 cut(s)	83, 440, 654, 717
DpnI	GATC	2 cut(s)	65, 330
DpnII	GATC	2 cut(s)	63, 328
Eam1104I	CTCTTC	3 cut(s)	294, 318, 653
EarI	CTCTTC	3 cut(s)	294, 318, 653
Eco57I	CTGAAG	2 cut(s)	279, 342
EcoO109I	RGGNCCY	1 cut(s)	271
FaeI	CATG	3 cut(s)	229, 314, 557
FatI	CATG	3 cut(s)	225, 310, 553
Fnu4HI	GCNGC	4 cut(s)	115, 118, 138, 377
FokI	GGATG	5 cut(s)	427, 446, 633, 670, 757
Fsp4HI	GCNGC	4 cut(s)	115, 118, 138, 377
FspBI	CTAG	1 cut(s)	243
GlaI	GCGC	2 cut(s)	305, 626
GluI	GCNGC	4 cut(s)	115, 118, 138, 377
GsuI	CTGGAG	1 cut(s)	485
HaeII	RGCGCY	1 cut(s)	307
HaeIII	GGCC	1 cut(s)	273
HhaI	GCGC	2 cut(s)	306, 627
Hin1II	CATG	3 cut(s)	229, 314, 557
Hin6I	GCGC	2 cut(s)	304, 625
HinP1I	GCGC	2 cut(s)	304, 625
HindIII	AAGCTT	1 cut(s)	200
HinfI	GANTC	4 cut(s)	314, 341, 580, 641
Hpy188I	TCNGA	7 cut(s)	298, 333, 414, 426, 526, 718, 742
Hpy188III	TCNNGA	3 cut(s)	67, 130, 584
HpyAV	CCTTC	6 cut(s)	127, 412, 476, 502, 553, 639
HpyCH4III	ACNGT	1 cut(s)	399
HpyCH4IV	ACGT	1 cut(s)	101
HpyCH4V	TGCA	6 cut(s)	173, 355, 376, 568, 754, 790
HpyF10VI	GCNNNNNNNGC	1 cut(s)	170
HpyF3I	CTNAG	4 cut(s)	83, 440, 654, 717
HpySE526I	ACGT	1 cut(s)	101
Hsp92II	CATG	3 cut(s)	229, 314, 557
HspAI	GCGC	2 cut(s)	304, 625
Kzo9I	GATC	2 cut(s)	63, 328
LguI	GCTCTTC	1 cut(s)	294
LmnI	GCTCC	1 cut(s)	550
Lsp1109I	GCAGC	3 cut(s)	129, 149, 388
LweI	GCATC	1 cut(s)	151
MaeI	CTAG	1 cut(s)	243
MaeII	ACGT	1 cut(s)	101
MaeIII	GTNAC	2 cut(s)	97, 728
MalI	GATC	2 cut(s)	65, 330
MboI	GATC	2 cut(s)	63, 328
MboII	GAAGA	6 cut(s)	82, 285, 311, 335, 550, 670
MfeI	CAATTG	2 cut(s)	700, 755
MflI	RGATCY	1 cut(s)	328
MhlI	GDGCHC	1 cut(s)	723
MmeI	TCCRAC	2 cut(s)	381, 392
MseI	TTAA	2 cut(s)	446, 498
MslI	CAYNNNNRTG	3 cut(s)	224, 726, 775
MspA1I	CMGCKG	1 cut(s)	120
MunI	CAATTG	2 cut(s)	700, 755
Mva1269I	GAATGC	2 cut(s)	736, 808
MwoI	GCNNNNNNNGC	1 cut(s)	170
NdeII	GATC	2 cut(s)	63, 328
NlaIII	CATG	3 cut(s)	229, 314, 557
NmeAIII	GCCGAG	1 cut(s)	190
NmuCI	GTSAC	2 cut(s)	97, 728
OliI	CACNNNNGTG	1 cut(s)	726
PciSI	GCTCTTC	1 cut(s)	294
PcsI	WCGNNNNNNNCGW	1 cut(s)	729
PctI	GAATGC	2 cut(s)	736, 808
PfeI	GAWTC	4 cut(s)	314, 341, 580, 641
PflMI	CCANNNNNTGG	1 cut(s)	780
PkrI	GCNGC	4 cut(s)	116, 119, 139, 378
PspPI	GGNCC	1 cut(s)	271
PstI	CTGCAG	1 cut(s)	357
PstNI	CAGNNNCTG	1 cut(s)	430
PsuI	RGATCY	1 cut(s)	328
RsaI	GTAC	2 cut(s)	153, 351
RsaNI	GTAC	2 cut(s)	152, 350
RseI	CAYNNNNRTG	3 cut(s)	224, 726, 775
SapI	GCTCTTC	1 cut(s)	294
SaqAI	TTAA	2 cut(s)	446, 498
SatI	GCNGC	4 cut(s)	115, 118, 138, 377
Sau3AI	GATC	2 cut(s)	63, 328
Sau96I	GGNCC	1 cut(s)	271
ScaI	AGTACT	1 cut(s)	153
SduI	GDGCHC	1 cut(s)	723
SetI	ASST	7 cut(s)	104, 204, 248, 446, 456, 465, 496
SfaNI	GCATC	1 cut(s)	151
SfcI	CTRYAG	1 cut(s)	353
SmiMI	CAYNNNNRTG	3 cut(s)	224, 726, 775
SsiI	CCGC	2 cut(s)	115, 120
SspMI	CTAG	1 cut(s)	243
TaaI	ACNGT	1 cut(s)	399
TaiI	ACGT	1 cut(s)	104
TatI	WGTACW	1 cut(s)	151
TauI	GCSGC	1 cut(s)	117
TfiI	GAWTC	4 cut(s)	314, 341, 580, 641
Tru1I	TTAA	2 cut(s)	446, 498
Tru9I	TTAA	2 cut(s)	446, 498
TscAI	CASTG	1 cut(s)	792
TseFI	GTSAC	2 cut(s)	97, 728
TseI	GCWGC	3 cut(s)	117, 137, 376
Tsp45I	GTSAC	2 cut(s)	97, 728
TspDTI	ATGAA	3 cut(s)	222, 327, 431
TspRI	CASTG	1 cut(s)	792
Van91I	CCANNNNNTGG	1 cut(s)	780
XapI	RAATTY	3 cut(s)	234, 335, 362
XspI	CTAG	1 cut(s)	243
ZrmI	AGTACT	1 cut(s)	153

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