Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0002429

Physical Location & Seq

Genomic Coordinates Reverse (-)

63512045 .. 63516736

Gene Structure 4692 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG381400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGGGAAGGGGTAGGGTTCAGCTGAAGAGGATAGAGAACAAGATCAACAGGCAGGTCACCTTTTCGAAACGAAGAACTGGGTTGCTGAAGAAGGCGCATGAGATCTCTGTCTTGTGCGATGCTCAGGTTGCTTTGATTGTCTTCTCTAACAAAGGGAAGCTCTTTGAATACGCAACTGATTCATGCATGGAGAATATACTTGAACGCTATGAGCGGTACTCGTACGCAGAGAGACAGCTAGTCGAACCTGATTTGGAATCACAGGGTAACTGGACCTTCGAACATGCTAGACTGAAGGTGAAAGTTGAGCTTCTGCAAAGAAACCTTAGGCACTATTTGGGAGAAGATTTGGATTCATTGAGTATCAAAGAGATCCAAAGTTTGGAGCAACAGCTTGACAATTCTCTTAAGCAAATTCGATCAAGAAAGAACCAACTCATGCATGAGTCTATCTCCGAGCTTCAGAGAAAGGAGAAGGCAATGCAGGAGCAAAATAACTTCCTTTCAAAGAAGATTAAGGAGAAAGAGAAGAATGTAGCGGAAGCTCAGGAGGTTCATAATTGGGAGCAGCAGCAACAGCAGCAAAACCATGGCCTTAACCTGGTAGCACAGGCTCCACTTCCATGTTTGAACATGGGTGGCACTCAGCAAAATGATCAGTTCCTTCAAGTGAGGAGGAACCAGCTCGACCTTACTCTCGAGCCATCGTTGTATTCATGCCACCTTGGATGCTTTGCTTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

K-box SRF-TF

Protein Analysis

247

Amino Acids

28.88

Weight (kDa)

8.73

Isoelectric Point (pI)

58.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 57	8.4e-26	SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box	PF01486	87 - 172	1.6e-29	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: OG0002429)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G26310 AT1G69120 AT1G69120 AT1G69120
fragaria_vesca	FvH4_4g29600 FvH4_4g29600 FvH4_4g29600 FvH4_4g29600 FvH4_6g46410
malus_domestica	MD09G1074100.v1.1 MD13G1059200.v1.1 MD16G1058500.v1.1 MD17G1065500.v1.1
prunus_persica	Prupe.1G290600_v2.0.a1 Prupe.3G249300_v2.0.a1 Prupe.3G249300_v2.0.a1 Prupe.3G249300_v2.0.a1
pyrus_communis	pycom16g05110 pycom17g06540
rosa_chinensis	RchiOBHm_Chr2g0164941 RchiOBHm_Chr4g0437841
rosa_laevigata	RLG00000006408 RLG00000021499
rosa_multiflora	Rmu_sc0001097.1_g000003 Rmu_sc0004193.1_g000008
rosa_roxburghii	Rroxscaffold_2G00086190 Rroxscaffold_5G00379010
rosa_rugosa	Rorug02G0511400 Rorug04G0304200 Rorug04G0304300 Rorug04G0304300 Rorug04G0304400
rosa_samantha	Rh2AG579700 Rh2BG590700 Rh2CG561400 Rh2DG601100 Rh4AG356500 Rh4CG381400 Rh4DG361700
rosa_wichuraiana	Rw2G048120 Rw4G031440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	43
AccB7I	CCANNNNNTGG	1 cut(s)	382
AccBSI	CCGCTC	1 cut(s)	214
AciI	CCGC	2 cut(s)	214, 539
AclWI	GGATC	1 cut(s)	367
AcsI	RAATTY	1 cut(s)	414
AcuI	CTGAAG	4 cut(s)	44, 107, 314, 446
AfaI	GTAC	2 cut(s)	218, 224
AfiI	CCNNNNNNNGG	2 cut(s)	382, 601
AflII	CTTAAG	1 cut(s)	407
AgsI	TTSAA	5 cut(s)	167, 203, 507, 631, 668
AhdI	GACNNNNNGTC	1 cut(s)	239
AjnI	CCWGG	1 cut(s)	600
AluBI	AGCT	8 cut(s)	22, 160, 238, 310, 394, 460, 545, 685
AluI	AGCT	8 cut(s)	22, 160, 238, 310, 394, 460, 545, 685
Alw26I	GTCTC	1 cut(s)	226
AlwI	GGATC	1 cut(s)	367
Ama87I	CYCGRG	1 cut(s)	698
AoxI	GGCC	1 cut(s)	592
ApeKI	GCWGC	3 cut(s)	568, 571, 580
ApoI	RAATTY	1 cut(s)	414
AspLEI	GCGC	1 cut(s)	97
AspS9I	GGNCC	1 cut(s)	273
AsuHPI	GGTGA	2 cut(s)	49, 310
AsuII	TTCGAA	2 cut(s)	65, 279
AvaI	CYCGRG	1 cut(s)	698
AvaII	GGWCC	1 cut(s)	273
AxyI	CCTNAGG	1 cut(s)	326
BbsI	GAAGAC	1 cut(s)	133
BbvI	GCAGC	3 cut(s)	580, 583, 592
BccI	CCATC	1 cut(s)	712
BciT130I	CCWGG	1 cut(s)	602
BclI	TGATCA	1 cut(s)	655
BcoDI	GTCTC	1 cut(s)	226
BfaI	CTAG	2 cut(s)	239, 288
BfrI	CTTAAG	1 cut(s)	407
BfuAI	ACCTGC	1 cut(s)	43
BglII	AGATCT	1 cut(s)	102
BisI	GCNGC	3 cut(s)	569, 572, 581
BlsI	GCNGC	3 cut(s)	570, 573, 582
Bme1390I	CCNGG	1 cut(s)	602
Bme18I	GGWCC	1 cut(s)	273
BmeRI	GACNNNNNGTC	1 cut(s)	239
BmeT110I	CYCGRG	1 cut(s)	698
BmgT120I	GGNCC	1 cut(s)	273
BmiI	GGNNCC	2 cut(s)	615, 680
BmrFI	CCNGG	1 cut(s)	602
BmrI	ACTGGG	1 cut(s)	87
BmsI	GCATC	2 cut(s)	109, 719
BmuI	ACTGGG	1 cut(s)	87
BpiI	GAAGAC	1 cut(s)	133
BplI	GAGNNNNNCTC	4 cut(s)	203, 235, 437, 469
Bpu10I	CCTNAGC	2 cut(s)	123, 546
Bpu14I	TTCGAA	2 cut(s)	65, 279
BsaJI	CCNNGG	2 cut(s)	589, 724
Bsc4I	CCNNNNNNNGG	2 cut(s)	382, 601
Bse1I	ACTGG	2 cut(s)	82, 275
Bse21I	CCTNAGG	1 cut(s)	326
Bse3DI	GCAATG	1 cut(s)	486
BseBI	CCWGG	1 cut(s)	602
BseDI	CCNNGG	2 cut(s)	589, 724
BseGI	GGATG	1 cut(s)	734
BseLI	CCNNNNNNNGG	2 cut(s)	382, 601
BseMI	GCAATG	1 cut(s)	486
BseMII	CTCAG	3 cut(s)	137, 560, 659
BseNI	ACTGG	2 cut(s)	82, 275
BseRI	GAGGAG	1 cut(s)	688
BseXI	GCAGC	3 cut(s)	580, 583, 592
BshFI	GGCC	1 cut(s)	594
BsiHKCI	CYCGRG	1 cut(s)	698
BsiWI	CGTACG	1 cut(s)	222
BslI	CCNNNNNNNGG	2 cut(s)	382, 601
BsmAI	GTCTC	1 cut(s)	226
BsnI	GGCC	1 cut(s)	594
BsoBI	CYCGRG	1 cut(s)	698
Bsp119I	TTCGAA	2 cut(s)	65, 279
Bsp143I	GATC	5 cut(s)	42, 102, 372, 419, 655
Bsp19I	CCATGG	1 cut(s)	589
BspACI	CCGC	2 cut(s)	214, 539
BspANI	GGCC	1 cut(s)	594
BspCNI	CTCAG	3 cut(s)	136, 559, 658
BspHI	TCATGA	1 cut(s)	740
BspLI	GGNNCC	2 cut(s)	615, 680
BspMI	ACCTGC	1 cut(s)	43
BspPI	GGATC	1 cut(s)	367
BspT104I	TTCGAA	2 cut(s)	65, 279
BspTI	CTTAAG	1 cut(s)	407
BsrBI	CCGCTC	1 cut(s)	214
BsrDI	GCAATG	1 cut(s)	486
BsrI	ACTGG	2 cut(s)	82, 275
BssECI	CCNNGG	2 cut(s)	589, 724
BssMI	GATC	5 cut(s)	42, 102, 372, 419, 655
BssT1I	CCWWGG	2 cut(s)	589, 724
Bst2UI	CCWGG	1 cut(s)	602
Bst6I	CTCTTC	1 cut(s)	20
BstAFI	CTTAAG	1 cut(s)	407
BstBI	TTCGAA	2 cut(s)	65, 279
BstDEI	CTNAG	4 cut(s)	123, 326, 546, 645
BstDSI	CCRYGG	1 cut(s)	589
BstEII	GGTNACC	1 cut(s)	55
BstF5I	GGATG	1 cut(s)	734
BstHHI	GCGC	1 cut(s)	97
BstKTI	GATC	5 cut(s)	45, 105, 375, 422, 658
BstMAI	GTCTC	1 cut(s)	226
BstMBI	GATC	5 cut(s)	42, 102, 372, 419, 655
BstMWI	GCNNNNNNNGC	3 cut(s)	128, 577, 580
BstNI	CCWGG	1 cut(s)	602
BstNSI	RCATGY	1 cut(s)	287
BstPI	GGTNACC	1 cut(s)	55
BstSCI	CCNGG	1 cut(s)	600
BstV1I	GCAGC	3 cut(s)	580, 583, 592
BstV2I	GAAGAC	1 cut(s)	133
BstX2I	RGATCY	2 cut(s)	102, 372
BstYI	RGATCY	2 cut(s)	102, 372
Bsu36I	CCTNAGG	1 cut(s)	326
BsuRI	GGCC	1 cut(s)	594
BtgI	CCRYGG	1 cut(s)	589
BtgZI	GCGATG	1 cut(s)	132
BtsCI	GGATG	1 cut(s)	734
BveI	ACCTGC	1 cut(s)	43
CciI	TCATGA	1 cut(s)	740
CfoI	GCGC	1 cut(s)	97
Cfr13I	GGNCC	1 cut(s)	273
CsiI	ACCWGGT	1 cut(s)	600
Csp6I	GTAC	2 cut(s)	217, 223
CviQI	GTAC	2 cut(s)	217, 223
DdeI	CTNAG	4 cut(s)	123, 326, 546, 645
DpnI	GATC	5 cut(s)	44, 104, 374, 421, 657
DpnII	GATC	5 cut(s)	42, 102, 372, 419, 655
DriI	GACNNNNNGTC	1 cut(s)	239
Eam1104I	CTCTTC	1 cut(s)	20
Eam1105I	GACNNNNNGTC	1 cut(s)	239
EarI	CTCTTC	1 cut(s)	20
Eco130I	CCWWGG	2 cut(s)	589, 724
Eco47I	GGWCC	1 cut(s)	273
Eco57I	CTGAAG	4 cut(s)	44, 107, 314, 446
Eco81I	CCTNAGG	1 cut(s)	326
Eco88I	CYCGRG	1 cut(s)	698
Eco91I	GGTNACC	1 cut(s)	55
EcoO65I	GGTNACC	1 cut(s)	55
EcoRII	CCWGG	1 cut(s)	600
EcoT14I	CCWWGG	2 cut(s)	589, 724
EcoT22I	ATGCAT	2 cut(s)	188, 444
ErhI	CCWWGG	2 cut(s)	589, 724
FalI	AAGNNNNNCTT	2 cut(s)	294, 326
FbaI	TGATCA	1 cut(s)	655
Fnu4HI	GCNGC	3 cut(s)	569, 572, 581
Fsp4HI	GCNGC	3 cut(s)	569, 572, 581
FspBI	CTAG	2 cut(s)	239, 288
GlaI	GCGC	1 cut(s)	96
GluI	GCNGC	3 cut(s)	569, 572, 581
HaeIII	GGCC	1 cut(s)	594
HhaI	GCGC	1 cut(s)	97
Hin6I	GCGC	1 cut(s)	95
HinP1I	GCGC	1 cut(s)	95
HinfI	GANTC	4 cut(s)	179, 257, 353, 446
HphI	GGTGA	2 cut(s)	49, 310
Hpy188I	TCNGA	2 cut(s)	457, 465
Hpy188III	TCNNGA	4 cut(s)	423, 548, 698, 741
HpyAV	CCTTC	5 cut(s)	85, 286, 289, 469, 674
HpyCH4V	TGCA	4 cut(s)	186, 316, 442, 484
HpyF10VI	GCNNNNNNNGC	3 cut(s)	128, 577, 580
HpyF3I	CTNAG	4 cut(s)	123, 326, 546, 645
HspAI	GCGC	1 cut(s)	95
Ksp22I	TGATCA	1 cut(s)	655
Kzo9I	GATC	5 cut(s)	42, 102, 372, 419, 655
LmnI	GCTCC	4 cut(s)	385, 487, 565, 619
Lsp1109I	GCAGC	3 cut(s)	580, 583, 592
LweI	GCATC	2 cut(s)	109, 719
MabI	ACCWGGT	1 cut(s)	600
MaeI	CTAG	2 cut(s)	239, 288
MaeIII	GTNAC	2 cut(s)	55, 266
MalI	GATC	5 cut(s)	44, 104, 374, 421, 657
MbiI	CCGCTC	1 cut(s)	214
MboI	GATC	5 cut(s)	42, 102, 372, 419, 655
MboII	GAAGA	7 cut(s)	37, 84, 100, 133, 356, 523, 541
MflI	RGATCY	2 cut(s)	102, 372
MluCI	AATT	3 cut(s)	400, 414, 559
MlyI	GAGTC	1 cut(s)	455
MnlI	CCTC	4 cut(s)	21, 544, 666, 669
Mph1103I	ATGCAT	2 cut(s)	188, 444
MseI	TTAA	3 cut(s)	408, 516, 597
MslI	CAYNNNNRTG	1 cut(s)	622
MspA1I	CMGCKG	1 cut(s)	22
MspCI	CTTAAG	1 cut(s)	407
MspR9I	CCNGG	1 cut(s)	602
MvaI	CCWGG	1 cut(s)	602
MwoI	GCNNNNNNNGC	3 cut(s)	128, 577, 580
NcoI	CCATGG	1 cut(s)	589
NdeII	GATC	5 cut(s)	42, 102, 372, 419, 655
NlaIV	GGNNCC	2 cut(s)	615, 680
NmuCI	GTSAC	1 cut(s)	55
NsiI	ATGCAT	2 cut(s)	188, 444
NspI	RCATGY	1 cut(s)	287
NspV	TTCGAA	2 cut(s)	65, 279
PaeR7I	CTCGAG	1 cut(s)	698
PagI	TCATGA	1 cut(s)	740
PfeI	GAWTC	3 cut(s)	179, 257, 353
Pfl23II	CGTACG	1 cut(s)	222
PflMI	CCANNNNNTGG	1 cut(s)	382
PkrI	GCNGC	3 cut(s)	570, 573, 582
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
Psp6I	CCWGG	1 cut(s)	600
PspEI	GGTNACC	1 cut(s)	55
PspGI	CCWGG	1 cut(s)	600
PspLI	CGTACG	1 cut(s)	222
PspN4I	GGNNCC	2 cut(s)	615, 680
PspPI	GGNCC	1 cut(s)	273
PsuI	RGATCY	2 cut(s)	102, 372
PvuII	CAGCTG	1 cut(s)	22
RsaI	GTAC	2 cut(s)	218, 224
RsaNI	GTAC	2 cut(s)	217, 223
RseI	CAYNNNNRTG	1 cut(s)	622
SaqAI	TTAA	3 cut(s)	408, 516, 597
SatI	GCNGC	3 cut(s)	569, 572, 581
Sau3AI	GATC	5 cut(s)	42, 102, 372, 419, 655
Sau96I	GGNCC	1 cut(s)	273
SchI	GAGTC	1 cut(s)	455
ScrFI	CCNGG	1 cut(s)	602
SexAI	ACCWGGT	1 cut(s)	600
SfaNI	GCATC	2 cut(s)	109, 719
Sfr274I	CTCGAG	1 cut(s)	698
SfuI	TTCGAA	2 cut(s)	65, 279
SinI	GGWCC	1 cut(s)	273
SlaI	CTCGAG	1 cut(s)	698
SmiMI	CAYNNNNRTG	1 cut(s)	622
SmlI	CTYRAG	2 cut(s)	407, 698
SmoI	CTYRAG	2 cut(s)	407, 698
Sse9I	AATT	3 cut(s)	400, 414, 559
SsiI	CCGC	2 cut(s)	214, 539
SspMI	CTAG	2 cut(s)	239, 288
StyD4I	CCNGG	1 cut(s)	600
StyI	CCWWGG	2 cut(s)	589, 724
TaqI	TCGA	6 cut(s)	65, 243, 279, 418, 687, 699
TasI	AATT	3 cut(s)	400, 414, 559
TfiI	GAWTC	3 cut(s)	179, 257, 353
Tru1I	TTAA	3 cut(s)	408, 516, 597
Tru9I	TTAA	3 cut(s)	408, 516, 597
TseFI	GTSAC	1 cut(s)	55
TseI	GCWGC	3 cut(s)	568, 571, 580
Tsp45I	GTSAC	1 cut(s)	55
TspDTI	ATGAA	5 cut(s)	171, 345, 545, 705, 729
Van91I	CCANNNNNTGG	1 cut(s)	382
Vha464I	CTTAAG	1 cut(s)	407
VpaK11BI	GGWCC	1 cut(s)	273
XapI	RAATTY	1 cut(s)	414
XceI	RCATGY	1 cut(s)	287
XhoI	CTCGAG	1 cut(s)	698
XspI	CTAG	2 cut(s)	239, 288
Zsp2I	ATGCAT	2 cut(s)	188, 444

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