Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002429

Physical Location & Seq

Genomic Coordinates Reverse (-)

66676363 .. 66679813

Gene Structure 3451 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG356500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGGGAAGGGGTAGGGTTCAGCTGAAGAGGATAGAGAACAAGATCAACAGGCAGGTCACCTTTTCGAAACGAAGAACTGGGTTGCTGAAGAAGGCGCATGAGATCTCTGTCTTGTGCGATGCTCAGGTTGCTTTGATTGTCTTCTCTAACAAAGGGAAGCTCTTTGAATACTCAACTGATTCATGCATGGAGAATATACTTGAACGCTATGAGCGGTACTCGTACGCAGAGAGACAGCTAGTCGAACCTGATTTGGAATCACAGGGTAACTGGACCTTCGAACATGCTAGACTGAAGGTGAAAGTTGAGCTTCTGCAAAGAAACCTTAGGCACTATTTGGGAGAAGATCTGGATTCATTGAGTATCAAAGAGATCCAAAGTTTGGAGCAACAGCTTGACAATTCTCTTAAGCAAATTCGATCAAGAAAGAACCAACTCATGCATGAGTCTATGTCCGAACTTCAGAGAAAGGAGAAGGCAATGCAGGAGCAAAATAACTTGCTTTCAAAGAAGGTCATCAACTTAAAAATATGCTAG

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

178

Amino Acids

21.02

Weight (kDa)

9.44

Isoelectric Point (pI)

56.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SRF-TF	PF00319	10 - 57	4.8e-26	SRF-type transcription factor (DNA-binding and dimerisation domain)
K-box	PF01486	87 - 172	4.9e-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

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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	1 cut(s)	214
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	1 cut(s)	382
AflII	CTTAAG	1 cut(s)	407
AgsI	TTSAA	3 cut(s)	167, 203, 507
AhdI	GACNNNNNGTC	1 cut(s)	239
AluBI	AGCT	5 cut(s)	22, 160, 238, 310, 394
AluI	AGCT	5 cut(s)	22, 160, 238, 310, 394
Alw26I	GTCTC	1 cut(s)	226
AlwI	GGATC	1 cut(s)	367
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
AvaII	GGWCC	1 cut(s)	273
AxyI	CCTNAGG	1 cut(s)	326
BbsI	GAAGAC	1 cut(s)	133
BcoDI	GTCTC	1 cut(s)	226
BfaI	CTAG	3 cut(s)	239, 288, 535
BfrI	CTTAAG	1 cut(s)	407
BfuAI	ACCTGC	1 cut(s)	43
BglII	AGATCT	2 cut(s)	102, 346
Bme18I	GGWCC	1 cut(s)	273
BmeRI	GACNNNNNGTC	1 cut(s)	239
BmgT120I	GGNCC	1 cut(s)	273
BmrI	ACTGGG	1 cut(s)	87
BmsI	GCATC	1 cut(s)	109
BmuI	ACTGGG	1 cut(s)	87
BpiI	GAAGAC	1 cut(s)	133
BplI	GAGNNNNNCTC	2 cut(s)	203, 235
Bpu10I	CCTNAGC	1 cut(s)	123
Bpu14I	TTCGAA	2 cut(s)	65, 279
Bsc4I	CCNNNNNNNGG	1 cut(s)	382
Bse1I	ACTGG	2 cut(s)	82, 275
Bse21I	CCTNAGG	1 cut(s)	326
Bse3DI	GCAATG	1 cut(s)	486
BseLI	CCNNNNNNNGG	1 cut(s)	382
BseMI	GCAATG	1 cut(s)	486
BseMII	CTCAG	1 cut(s)	137
BseNI	ACTGG	2 cut(s)	82, 275
BsiWI	CGTACG	1 cut(s)	222
BslI	CCNNNNNNNGG	1 cut(s)	382
BsmAI	GTCTC	1 cut(s)	226
Bsp119I	TTCGAA	2 cut(s)	65, 279
Bsp143I	GATC	5 cut(s)	42, 102, 346, 372, 419
BspACI	CCGC	1 cut(s)	214
BspCNI	CTCAG	1 cut(s)	136
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
BssMI	GATC	5 cut(s)	42, 102, 346, 372, 419
Bst6I	CTCTTC	1 cut(s)	20
BstAFI	CTTAAG	1 cut(s)	407
BstBI	TTCGAA	2 cut(s)	65, 279
BstDEI	CTNAG	2 cut(s)	123, 326
BstEII	GGTNACC	1 cut(s)	55
BstHHI	GCGC	1 cut(s)	97
BstKTI	GATC	5 cut(s)	45, 105, 349, 375, 422
BstMAI	GTCTC	1 cut(s)	226
BstMBI	GATC	5 cut(s)	42, 102, 346, 372, 419
BstMWI	GCNNNNNNNGC	1 cut(s)	128
BstNSI	RCATGY	1 cut(s)	287
BstPI	GGTNACC	1 cut(s)	55
BstV2I	GAAGAC	1 cut(s)	133
BstX2I	RGATCY	3 cut(s)	102, 346, 372
BstYI	RGATCY	3 cut(s)	102, 346, 372
Bsu36I	CCTNAGG	1 cut(s)	326
BtgZI	GCGATG	1 cut(s)	132
BveI	ACCTGC	1 cut(s)	43
CfoI	GCGC	1 cut(s)	97
Cfr13I	GGNCC	1 cut(s)	273
Csp6I	GTAC	2 cut(s)	217, 223
CviAII	CATG	6 cut(s)	98, 183, 187, 284, 439, 443
CviJI	RGCY	5 cut(s)	22, 160, 238, 310, 394
CviKI_1	RGCY	5 cut(s)	22, 160, 238, 310, 394
CviQI	GTAC	2 cut(s)	217, 223
DdeI	CTNAG	2 cut(s)	123, 326
DpnI	GATC	5 cut(s)	44, 104, 348, 374, 421
DpnII	GATC	5 cut(s)	42, 102, 346, 372, 419
DriI	GACNNNNNGTC	1 cut(s)	239
Eam1104I	CTCTTC	1 cut(s)	20
Eam1105I	GACNNNNNGTC	1 cut(s)	239
EarI	CTCTTC	1 cut(s)	20
Eco47I	GGWCC	1 cut(s)	273
Eco57I	CTGAAG	4 cut(s)	44, 107, 314, 446
Eco81I	CCTNAGG	1 cut(s)	326
Eco91I	GGTNACC	1 cut(s)	55
EcoO65I	GGTNACC	1 cut(s)	55
EcoT22I	ATGCAT	2 cut(s)	188, 444
FaeI	CATG	6 cut(s)	101, 186, 190, 287, 442, 446
FalI	AAGNNNNNCTT	2 cut(s)	294, 326
FatI	CATG	6 cut(s)	97, 182, 186, 283, 438, 442
FspBI	CTAG	3 cut(s)	239, 288, 535
GlaI	GCGC	1 cut(s)	96
HhaI	GCGC	1 cut(s)	97
Hin1II	CATG	6 cut(s)	101, 186, 190, 287, 442, 446
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	2 cut(s)	350, 423
HpyAV	CCTTC	5 cut(s)	85, 286, 289, 469, 505
HpyCH4V	TGCA	4 cut(s)	186, 316, 442, 484
HpyF10VI	GCNNNNNNNGC	1 cut(s)	128
HpyF3I	CTNAG	2 cut(s)	123, 326
Hsp92II	CATG	6 cut(s)	101, 186, 190, 287, 442, 446
HspAI	GCGC	1 cut(s)	95
Kzo9I	GATC	5 cut(s)	42, 102, 346, 372, 419
LmnI	GCTCC	2 cut(s)	385, 487
LpnPI	CCDG	9 cut(s)	34, 38, 63, 110, 248, 256, 261, 335, 470
LweI	GCATC	1 cut(s)	109
MaeI	CTAG	3 cut(s)	239, 288, 535
MaeIII	GTNAC	2 cut(s)	55, 266
MalI	GATC	5 cut(s)	44, 104, 348, 374, 421
MbiI	CCGCTC	1 cut(s)	214
MboI	GATC	5 cut(s)	42, 102, 346, 372, 419
MboII	GAAGA	5 cut(s)	37, 84, 100, 133, 356
MflI	RGATCY	3 cut(s)	102, 346, 372
MluCI	AATT	2 cut(s)	400, 414
MlyI	GAGTC	1 cut(s)	455
MnlI	CCTC	1 cut(s)	21
Mph1103I	ATGCAT	2 cut(s)	188, 444
MseI	TTAA	2 cut(s)	408, 524
MspA1I	CMGCKG	1 cut(s)	22
MspCI	CTTAAG	1 cut(s)	407
MwoI	GCNNNNNNNGC	1 cut(s)	128
NdeII	GATC	5 cut(s)	42, 102, 346, 372, 419
NlaIII	CATG	6 cut(s)	101, 186, 190, 287, 442, 446
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
PfeI	GAWTC	3 cut(s)	179, 257, 353
Pfl23II	CGTACG	1 cut(s)	222
PflMI	CCANNNNNTGG	1 cut(s)	382
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
PspEI	GGTNACC	1 cut(s)	55
PspLI	CGTACG	1 cut(s)	222
PspPI	GGNCC	1 cut(s)	273
PsuI	RGATCY	3 cut(s)	102, 346, 372
PvuII	CAGCTG	1 cut(s)	22
RsaI	GTAC	2 cut(s)	218, 224
RsaNI	GTAC	2 cut(s)	217, 223
SaqAI	TTAA	2 cut(s)	408, 524
Sau3AI	GATC	5 cut(s)	42, 102, 346, 372, 419
Sau96I	GGNCC	1 cut(s)	273
SchI	GAGTC	1 cut(s)	455
SfaNI	GCATC	1 cut(s)	109
SfuI	TTCGAA	2 cut(s)	65, 279
SinI	GGWCC	1 cut(s)	273
SmlI	CTYRAG	1 cut(s)	407
SmoI	CTYRAG	1 cut(s)	407
Sse9I	AATT	2 cut(s)	400, 414
SsiI	CCGC	1 cut(s)	214
SspMI	CTAG	3 cut(s)	239, 288, 535
TaqI	TCGA	4 cut(s)	65, 243, 279, 418
TasI	AATT	2 cut(s)	400, 414
TfiI	GAWTC	3 cut(s)	179, 257, 353
Tru1I	TTAA	2 cut(s)	408, 524
Tru9I	TTAA	2 cut(s)	408, 524
TseFI	GTSAC	1 cut(s)	55
Tsp45I	GTSAC	1 cut(s)	55
TspDTI	ATGAA	2 cut(s)	171, 345
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
XspI	CTAG	3 cut(s)	239, 288, 535
Zsp2I	ATGCAT	2 cut(s)	188, 444

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