Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004034

Physical Location & Seq

Genomic Coordinates Forward (+)

5837552 .. 5839388

Gene Structure 1837 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG077400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGGCTGGCTCCGGTTCCGGCCAGCCTCACTACAGAGGCGTGAGGAAGAGGCCGTGGGGTCGCTACGCCGCCGAGATCAGAGACCCGTGGAAGAAGACGAGAGTCTGGCTCGGCACATTCGACACGCCGGAGGAGGCAGCTCTCGCCTACGACGGCGCCGCCAGGTCCCTCCGCGGAAACAAGGCCAAGACGAACTTCCCGGCGCCGCTGACCAGAGGAGATCTCTCCCTCGACCTCAACGTCTCCTCCGCCCAGTGGGCCTCCCACTCCGGCCGTCTCGTCGAGTTCCTCCACACCGGCGTCTTGAACGACGTCGTGAAGAGCGAGGAGGCGGCGGGGTCGACGTCGTTTGTGGTGTCCAGAGGCCCCCGGCCTCCGGTTGTGGGGAGTAGCTTGGTCCAGGAAGGGTCCAGCACGGCGTCGTATCTCGGGTTCGTCCGACGTGGCTTGCCCATTGATCTCAACGAGCCTCCTCCGTTGTGGCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000160 GO:0003674 GO:0003700 GO:0006355 GO:0007154 GO:0007165 GO:0008150 GO:0009719 GO:0009723 GO:0009725 GO:0009755 GO:0009873 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0035556 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071369 GO:0071495 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

162

Amino Acids

17.54

Weight (kDa)

9.81

Isoelectric Point (pI)

46.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	9 - 60	1.7e-15	AP2 domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004034)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12980 AT1G28360 AT1G28370 AT1G28370 AT5G44210
fragaria_vesca	FvH4_3g08790 FvH4_7g26410
malus_domestica	MD05G1311600.v1.1 MD10G1290900.v1.1
prunus_persica	Prupe.4G051200_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0008971
rosa_laevigata	RLG00000031621
rosa_multiflora	Rmu_sc0001875.1_g000010 Rmu_sc0004677.1_g000023 Rmu_ssc0000183.1_g000016
rosa_roxburghii	Rroxscaffold_1G00067050 Rroxscaffold_1G00067680
rosa_rugosa	Rorug02G0224700
rosa_samantha	Rh2AG229600 Rh2CG100300 Rh2CG233700 Rh2DG237300 Rh3BG166700 Rh3DG166100 Rh4BG243800 Rh5AG069400 Rh5BG066200 Rh5CG077400 Rh5DG065400 Rh7AG201600
rosa_wichuraiana	Rw1G005600 Rw5G006480 Rw7G023460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	239
AatII	GACGTC	2 cut(s)	315, 347
AccB1I	GGYRCC	2 cut(s)	155, 202
AccI	GTMKAC	1 cut(s)	341
AccII	CGCG	1 cut(s)	174
AciI	CCGC	8 cut(s)	69, 159, 172, 174, 206, 249, 332, 335
AcoI	YGGCCR	2 cut(s)	19, 271
AcyI	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
AfiI	CCNNNNNNNGG	3 cut(s)	255, 376, 383
AgsI	TTSAA	1 cut(s)	307
AjiI	CACGTC	1 cut(s)	443
AjnI	CCWGG	2 cut(s)	161, 399
AjuI	GAANNNNNNNTTGG	2 cut(s)	179, 211
AluBI	AGCT	2 cut(s)	140, 393
AluI	AGCT	2 cut(s)	140, 393
Alw26I	GTCTC	3 cut(s)	75, 247, 281
Ama87I	CYCGRG	1 cut(s)	428
AoxI	GGCC	7 cut(s)	19, 50, 183, 258, 271, 364, 371
ApeKI	GCWGC	1 cut(s)	137
AspLEI	GCGC	2 cut(s)	158, 205
AspS9I	GGNCC	5 cut(s)	165, 258, 365, 397, 408
AsuC2I	CCSGG	2 cut(s)	200, 370
AvaI	CYCGRG	1 cut(s)	428
AvaII	GGWCC	3 cut(s)	165, 397, 408
BanI	GGYRCC	2 cut(s)	155, 202
BbsI	GAAGAC	1 cut(s)	101
BbvI	GCAGC	1 cut(s)	149
BceAI	ACGGC	4 cut(s)	37, 169, 258, 432
BciT130I	CCWGG	2 cut(s)	163, 401
BcnI	CCSGG	2 cut(s)	200, 370
BcoDI	GTCTC	3 cut(s)	75, 247, 281
BfmI	CTRYAG	1 cut(s)	31
BfoI	RGCGCY	2 cut(s)	159, 206
BglI	GCCNNNNNGGC	1 cut(s)	257
BglII	AGATCT	1 cut(s)	220
BisI	GCNGC	5 cut(s)	69, 138, 159, 206, 333
BlsI	GCNGC	5 cut(s)	70, 139, 160, 207, 334
Bme1390I	CCNGG	4 cut(s)	163, 200, 370, 401
Bme18I	GGWCC	3 cut(s)	165, 397, 408
BmeT110I	CYCGRG	1 cut(s)	428
BmgBI	CACGTC	1 cut(s)	443
BmgT120I	GGNCC	5 cut(s)	165, 258, 365, 397, 408
BmiI	GGNNCC	7 cut(s)	10, 16, 157, 167, 204, 367, 409
BmrFI	CCNGG	4 cut(s)	163, 200, 370, 401
BmrI	ACTGGG	1 cut(s)	247
BmuI	ACTGGG	1 cut(s)	247
BoxI	GACNNNNGTC	1 cut(s)	101
BpiI	GAAGAC	1 cut(s)	101
BplI	GAGNNNNNCTC	4 cut(s)	93, 125, 207, 239
BpuMI	CCSGG	2 cut(s)	200, 370
BsaHI	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
BsaI	GGTCTC	1 cut(s)	75
BsaJI	CCNNGG	4 cut(s)	53, 86, 172, 368
BsaWI	WCCGGW	2 cut(s)	11, 376
BsaXI	ACNNNNNCTCC	2 cut(s)	230, 260
Bsc4I	CCNNNNNNNGG	3 cut(s)	255, 376, 383
Bse118I	RCCGGY	1 cut(s)	296
Bse1I	ACTGG	1 cut(s)	253
BseBI	CCWGG	2 cut(s)	163, 401
BseDI	CCNNGG	4 cut(s)	53, 86, 172, 368
BseLI	CCNNNNNNNGG	3 cut(s)	255, 376, 383
BseNI	ACTGG	1 cut(s)	253
BseRI	GAGGAG	5 cut(s)	146, 231, 235, 341, 462
BseX3I	CGGCCG	1 cut(s)	271
BseXI	GCAGC	1 cut(s)	149
Bsh1236I	CGCG	1 cut(s)	174
Bsh1285I	CGRYCG	1 cut(s)	274
BshFI	GGCC	7 cut(s)	21, 52, 185, 260, 273, 366, 373
BshNI	GGYRCC	2 cut(s)	155, 202
BsiEI	CGRYCG	1 cut(s)	274
BsiHKCI	CYCGRG	1 cut(s)	428
BsiSI	CCGG	8 cut(s)	12, 18, 128, 200, 270, 297, 370, 377
BslFI	GGGAC	1 cut(s)	151
BslI	CCNNNNNNNGG	3 cut(s)	255, 376, 383
BsmAI	GTCTC	3 cut(s)	75, 247, 281
BsmBI	CGTCTC	2 cut(s)	247, 281
BsmFI	GGGAC	1 cut(s)	151
BsnI	GGCC	7 cut(s)	21, 52, 185, 260, 273, 366, 373
Bso31I	GGTCTC	1 cut(s)	75
BsoBI	CYCGRG	1 cut(s)	428
Bsp143I	GATC	3 cut(s)	75, 220, 457
BspACI	CCGC	8 cut(s)	69, 159, 172, 174, 206, 249, 332, 335
BspANI	GGCC	7 cut(s)	21, 52, 185, 260, 273, 366, 373
BspFNI	CGCG	1 cut(s)	174
BspLI	GGNNCC	7 cut(s)	10, 16, 157, 167, 204, 367, 409
BspQI	GCTCTTC	1 cut(s)	314
BspT107I	GGYRCC	2 cut(s)	155, 202
BspTNI	GGTCTC	1 cut(s)	75
BsrFI	RCCGGY	1 cut(s)	296
BsrI	ACTGG	1 cut(s)	253
BssAI	RCCGGY	1 cut(s)	296
BssECI	CCNNGG	4 cut(s)	53, 86, 172, 368
BssMI	GATC	3 cut(s)	75, 220, 457
BssNI	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
Bst2UI	CCWGG	2 cut(s)	163, 401
Bst6I	CTCTTC	2 cut(s)	41, 314
BstACI	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
BstC8I	GCNNGC	3 cut(s)	7, 23, 449
BstDSI	CCRYGG	3 cut(s)	53, 86, 172
BstFNI	CGCG	1 cut(s)	174
BstH2I	RGCGCY	2 cut(s)	159, 206
BstHHI	GCGC	2 cut(s)	158, 205
BstKTI	GATC	3 cut(s)	78, 223, 460
BstMAI	GTCTC	3 cut(s)	75, 247, 281
BstMBI	GATC	3 cut(s)	75, 220, 457
BstMCI	CGRYCG	1 cut(s)	274
BstMWI	GCNNNNNNNGC	2 cut(s)	143, 257
BstNI	CCWGG	2 cut(s)	163, 401
BstPAI	GACNNNNGTC	1 cut(s)	101
BstSCI	CCNGG	4 cut(s)	161, 198, 368, 399
BstSFI	CTRYAG	1 cut(s)	31
BstUI	CGCG	1 cut(s)	174
BstV1I	GCAGC	1 cut(s)	149
BstV2I	GAAGAC	1 cut(s)	101
BstX2I	RGATCY	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	220
BstZI	CGGCCG	1 cut(s)	271
BsuRI	GGCC	7 cut(s)	21, 52, 185, 260, 273, 366, 373
BtgI	CCRYGG	3 cut(s)	53, 86, 172
BtrI	CACGTC	1 cut(s)	443
BtsIMutI	CAGTG	1 cut(s)	260
Cac8I	GCNNGC	3 cut(s)	7, 23, 449
CfoI	GCGC	2 cut(s)	158, 205
Cfr10I	RCCGGY	1 cut(s)	296
Cfr13I	GGNCC	5 cut(s)	165, 258, 365, 397, 408
Cfr42I	CCGCGG	1 cut(s)	175
CseI	GACGC	2 cut(s)	289, 408
DinI	GGCGCC	2 cut(s)	157, 204
DpnI	GATC	3 cut(s)	77, 222, 459
DpnII	GATC	3 cut(s)	75, 220, 457
DrdI	GACNNNNNNGTC	1 cut(s)	239
DseDI	GACNNNNNNGTC	1 cut(s)	239
EaeI	YGGCCR	2 cut(s)	19, 271
EagI	CGGCCG	1 cut(s)	271
Eam1104I	CTCTTC	2 cut(s)	41, 314
EarI	CTCTTC	2 cut(s)	41, 314
EciI	GGCGGA	1 cut(s)	238
EclXI	CGGCCG	1 cut(s)	271
Eco31I	GGTCTC	1 cut(s)	75
Eco47I	GGWCC	3 cut(s)	165, 397, 408
Eco52I	CGGCCG	1 cut(s)	271
Eco88I	CYCGRG	1 cut(s)	428
EcoO109I	RGGNCCY	2 cut(s)	165, 365
EcoRII	CCWGG	2 cut(s)	161, 399
EgeI	GGCGCC	2 cut(s)	157, 204
EheI	GGCGCC	2 cut(s)	157, 204
Esp3I	CGTCTC	2 cut(s)	247, 281
FalI	AAGNNNNNCTT	2 cut(s)	179, 211
FaqI	GGGAC	1 cut(s)	151
FauI	CCCGC	1 cut(s)	328
FblI	GTMKAC	1 cut(s)	341
Fnu4HI	GCNGC	5 cut(s)	69, 138, 159, 206, 333
Fsp4HI	GCNGC	5 cut(s)	69, 138, 159, 206, 333
GlaI	GCGC	2 cut(s)	157, 204
GluI	GCNGC	5 cut(s)	69, 138, 159, 206, 333
HaeII	RGCGCY	2 cut(s)	159, 206
HaeIII	GGCC	7 cut(s)	21, 52, 185, 260, 273, 366, 373
HapII	CCGG	8 cut(s)	12, 18, 128, 200, 270, 297, 370, 377
HgaI	GACGC	2 cut(s)	289, 408
HhaI	GCGC	2 cut(s)	158, 205
Hin1I	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
Hin6I	GCGC	2 cut(s)	156, 203
HinP1I	GCGC	2 cut(s)	156, 203
HincII	GTYRAC	1 cut(s)	342
HindII	GTYRAC	1 cut(s)	342
HinfI	GANTC	1 cut(s)	102
HpaII	CCGG	8 cut(s)	12, 18, 128, 200, 270, 297, 370, 377
Hpy166II	GTNNAC	1 cut(s)	342
Hpy188I	TCNGA	2 cut(s)	80, 440
Hpy188III	TCNNGA	3 cut(s)	304, 316, 360
Hpy8I	GTNNAC	1 cut(s)	342
Hpy99I	CGWCG	8 cut(s)	155, 284, 314, 317, 346, 349, 424, 444
HpyAV	CCTTC	1 cut(s)	398
HpyCH4IV	ACGT	4 cut(s)	240, 312, 344, 442
HpyF10VI	GCNNNNNNNGC	2 cut(s)	143, 257
HpySE526I	ACGT	4 cut(s)	240, 312, 344, 442
Hsp92I	GRCGYC	6 cut(s)	156, 203, 300, 312, 344, 419
HspAI	GCGC	2 cut(s)	156, 203
KasI	GGCGCC	2 cut(s)	155, 202
KspI	CCGCGG	1 cut(s)	175
Kzo9I	GATC	3 cut(s)	75, 220, 457
LguI	GCTCTTC	1 cut(s)	314
LmnI	GCTCC	1 cut(s)	14
Lsp1109I	GCAGC	1 cut(s)	149
MaeII	ACGT	4 cut(s)	240, 312, 344, 442
MalI	GATC	3 cut(s)	77, 222, 459
MboI	GATC	3 cut(s)	75, 220, 457
MboII	GAAGA	4 cut(s)	58, 103, 106, 331
MflI	RGATCY	1 cut(s)	220
Mly113I	GGCGCC	2 cut(s)	156, 203
MlyI	GAGTC	1 cut(s)	111
MmeI	TCCRAC	1 cut(s)	463
MspA1I	CMGCKG	2 cut(s)	174, 208
MspI	CCGG	8 cut(s)	12, 18, 128, 200, 270, 297, 370, 377
MspR9I	CCNGG	4 cut(s)	163, 200, 370, 401
MvaI	CCWGG	2 cut(s)	163, 401
MvnI	CGCG	1 cut(s)	174
MwoI	GCNNNNNNNGC	2 cut(s)	143, 257
NarI	GGCGCC	2 cut(s)	156, 203
NciI	CCSGG	2 cut(s)	200, 370
NdeII	GATC	3 cut(s)	75, 220, 457
NlaIV	GGNNCC	7 cut(s)	10, 16, 157, 167, 204, 367, 409
NmeAIII	GCCGAG	2 cut(s)	90, 97
PciSI	GCTCTTC	1 cut(s)	314
PcsI	WCGNNNNNNNCGW	3 cut(s)	117, 237, 321
PfoI	TCCNGGA	1 cut(s)	399
PkrI	GCNGC	5 cut(s)	70, 139, 160, 207, 334
PleI	GAGTC	1 cut(s)	110
PluTI	GGCGCC	2 cut(s)	159, 206
PpsI	GAGTC	1 cut(s)	110
PpuMI	RGGWCCY	1 cut(s)	165
PshAI	GACNNNNGTC	1 cut(s)	101
Psp5II	RGGWCCY	1 cut(s)	165
Psp6I	CCWGG	2 cut(s)	161, 399
PspGI	CCWGG	2 cut(s)	161, 399
PspN4I	GGNNCC	7 cut(s)	10, 16, 157, 167, 204, 367, 409
PspPI	GGNCC	5 cut(s)	165, 258, 365, 397, 408
PspPPI	RGGWCCY	1 cut(s)	165
PsrI	GAACNNNNNNTAC	2 cut(s)	416, 448
PsuI	RGATCY	1 cut(s)	220
SacII	CCGCGG	1 cut(s)	175
SalI	GTCGAC	1 cut(s)	340
SapI	GCTCTTC	1 cut(s)	314
SatI	GCNGC	5 cut(s)	69, 138, 159, 206, 333
Sau3AI	GATC	3 cut(s)	75, 220, 457
Sau96I	GGNCC	5 cut(s)	165, 258, 365, 397, 408
SchI	GAGTC	1 cut(s)	111
ScrFI	CCNGG	4 cut(s)	163, 200, 370, 401
SetI	ASST	8 cut(s)	142, 167, 237, 243, 315, 347, 395, 445
SfcI	CTRYAG	1 cut(s)	31
SfoI	GGCGCC	2 cut(s)	157, 204
Sfr303I	CCGCGG	1 cut(s)	175
SgrAI	CRCCGGYG	1 cut(s)	296
SgrBI	CCGCGG	1 cut(s)	175
SinI	GGWCC	3 cut(s)	165, 397, 408
SsiI	CCGC	8 cut(s)	69, 159, 172, 174, 206, 249, 332, 335
SspDI	GGCGCC	2 cut(s)	155, 202
StyD4I	CCNGG	4 cut(s)	161, 198, 368, 399
TaiI	ACGT	4 cut(s)	243, 315, 347, 445
TaqI	TCGA	4 cut(s)	120, 231, 282, 341
TauI	GCSGC	4 cut(s)	71, 161, 208, 335
TscAI	CASTG	1 cut(s)	260
TseI	GCWGC	1 cut(s)	137
TspGWI	ACGGA	1 cut(s)	465
TspRI	CASTG	1 cut(s)	260
VpaK11BI	GGWCC	3 cut(s)	165, 397, 408
XmiI	GTMKAC	1 cut(s)	341
ZraI	GACGTC	2 cut(s)	313, 345

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