Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002546

Physical Location & Seq

Genomic Coordinates Reverse (-)

26271839 .. 26274941

Gene Structure 3103 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG264100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1428 bp

ATGACCAGTGATAATTTCATGAACCAAGGGGAGAATGCTAGTGGAAGTGGCACAAAATCTGCGGAAATGAAACGCAAACGTCGCCCAACTAAAAAGTGTAAACGAACATTTGGTGAGAAAAGTGATAATGTGCTCGACCAAGAGAAGAATTCTACTGGAAGTGGACTCAATTCTGTGAGAGTGCAACGTAAACGTCCGCCTACTAAAAAGGGCAAAAAAGCATCTGGTCAGAGAAGTTCTAGGTTTCGCGGAGTTACTAGGTACCCAGGACATTTTGAAGCATTTCTATGGGATAATTCTGATCCACAAGTGAGTGATTACATGAAGGAATTGGAGGAAATGCAAGCATATACAAAGAAAGACTATTTGCTCCATATCCGAAGAACCAGTGCTTGCTTCTCCAAAGGGCAATCCAAATATCGAGGAGTTTCCAAGTATGGAGGCAATATGAGATGGCAAGCCAGATTAGGCAAAGGCAAAGACACGAAAGGCCTTTATGTGGGAACATTTGATACTCAAGAGGAAGCAGCAAGGGCTTATGATATTGCAGTAATAAAATGTAGAGGAGGGTGGGAAGCAGTGACCAATTTTGACTTGAGCCACTATGATGTCAAAGGTATTCTTGAGAGCCCAAATATTCCAATTGAAAATGGTGCTTCAAAGTTCATAAGGTGGACTGCAGCTGATCATATCATCCAGAGCAGAAGAACCACTAACAATGTCACCGTTTCACAACTACAAGTTGACAGCTCGGGTAATAATCCTAATATAACCCCAATAGCCCCACCTTTATTTGAACCAACAATGCAATCCCTAGAAACCCATTGCAATTCAAACCCAGAGCAACAATATCTATGCCCCTCCCACAGTCCCAACCAAAATAATGACCAGATCCACATATTCCAATTTCCGCAGTACTTTAACAACCCTAACATTGAATTTGATCATCTTCCTTGTTACCAGAACCCTAATTTCCCAATAAACCCTAGTTTCGATAATTGGGGTAACCACGTTGAAAATGAGCAGATAGAGCCATCACTCCAGTTTCAACCTATTCTGACCCCAGAGAACCACGAGTTTCAGTTTCATCAGTATAACACTAACAATTCGCAGCCCCATCTGCCTCAAAACCCTTGCTCCTCCAGTCTTCAAGACTTTCAGAATCCTAATTGCCATGAAAACCCTAATATTTTTAGTGAGTTGACTAACCTTCAAAGTGGTAGCGATATCAGGGAATTTCCCAGTGGTCAGGAACCAGGGGCGACCTTCGCAATGATGGGGACGAACGAGAGTCACGGTGACTGCACCAATACAGTAGAGGAAAATAGAAATTTTGCTGAAGACTTTAGGGTGGACAATCCAGACATGGACATTTCATCTAGCAGCTGGTTCGAAATGTTAATGACCTTAAACAGTTCTGACATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000723 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006355 GO:0006725 GO:0006807 GO:0006996 GO:0007275 GO:0007389 GO:0008150 GO:0008152 GO:0009888 GO:0009889 GO:0009987 GO:0010073 GO:0010449 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0019827 GO:0022622 GO:0031323 GO:0031326 GO:0032200 GO:0032501 GO:0032502 GO:0034641 GO:0035266 GO:0040007 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0048364 GO:0048507 GO:0048589 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0060249 GO:0060255 GO:0065007 GO:0065008 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0098727 GO:0099402 GO:0140110 GO:1901360 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

475

Amino Acids

53.99

Weight (kDa)

6.08

Isoelectric Point (pI)

52.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	138 - 189	8.2e-09	AP2 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002546)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g23031
malus_domestica	MD17G1047700.v1.1
prunus_persica	Prupe.7G069100_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0480851 RchiOBHm_Chr3g0480891
rosa_laevigata	RLG00000023444 RLG00000023445 RLG00000023447 RLG00000034573
rosa_multiflora	Rmu_sc0004058.1_g000024 Rmu_sc0004838.1_g000011 Rmu_sc0006028.1_g000028 Rmu_sc0012984.1_g000002 Rmu_sc0012984.1_g000013
rosa_roxburghii	Rroxscaffold_1G00032960 Rroxscaffold_6G00400920 Rroxscaffold_6G00400960
rosa_rugosa	Rorug03G0186900 Rorug03G0187000 Rorug03G0187000 Rorug03G0187200 Rorug03G0187300 Rorug05G0241400
rosa_samantha	Rh3AG238500 Rh3AG238600 Rh3BG272000 Rh3BG272500 Rh3BG272700 Rh3BG272800 Rh3CG267800 Rh3CG268300 Rh3DG264100 Rh3DG264400 Rh5AG321600 Rh5BG331900 Rh5CG357200 Rh5DG343700
rosa_wichuraiana	Rw0G006160 Rw3G021350 Rw3G021360 Rw5G030350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	261
AccB1I	GGYRCC	1 cut(s)	261
AccII	CGCG	1 cut(s)	249
AciI	CCGC	4 cut(s)	62, 197, 249, 911
AclWI	GGATC	2 cut(s)	296, 886
AcsI	RAATTY	4 cut(s)	148, 938, 1235, 1330
AcuI	CTGAAG	1 cut(s)	1359
AfaI	GTAC	2 cut(s)	263, 917
AfiI	CCNNNNNNNGG	1 cut(s)	499
AjnI	CCWGG	2 cut(s)	265, 1255
AluBI	AGCT	3 cut(s)	683, 750, 1386
AluI	AGCT	3 cut(s)	683, 750, 1386
Alw21I	GWGCWC	1 cut(s)	135
AlwI	GGATC	2 cut(s)	296, 886
Ama87I	CYCGRG	1 cut(s)	751
AoxI	GGCC	1 cut(s)	490
ApeKI	GCWGC	4 cut(s)	527, 680, 1111, 1383
ApoI	RAATTY	4 cut(s)	148, 938, 1235, 1330
Asp700I	GAANNNNTTC	1 cut(s)	282
Asp718I	GGTACC	1 cut(s)	261
AsuHPI	GGTGA	3 cut(s)	125, 715, 1310
AsuII	TTCGAA	1 cut(s)	1392
AvaI	CYCGRG	1 cut(s)	751
BanI	GGYRCC	1 cut(s)	261
BanII	GRGCYC	1 cut(s)	632
BauI	CACGAG	1 cut(s)	1073
BbsI	GAAGAC	2 cut(s)	1139, 1347
Bbv12I	GWGCWC	1 cut(s)	135
BbvI	GCAGC	4 cut(s)	539, 692, 1123, 1395
BccI	CCATC	4 cut(s)	447, 1042, 1125, 1270
BcgI	CGANNNNNNTGC	2 cut(s)	1372, 1406
BciT130I	CCWGG	2 cut(s)	267, 1257
BclI	TGATCA	2 cut(s)	685, 943
BfaI	CTAG	6 cut(s)	39, 240, 258, 815, 987, 1380
BfmI	CTRYAG	1 cut(s)	678
BisI	GCNGC	4 cut(s)	528, 681, 1112, 1384
BlsI	GCNGC	4 cut(s)	529, 682, 1113, 1385
BmcAI	AGTACT	1 cut(s)	917
Bme1390I	CCNGG	2 cut(s)	267, 1257
BmeT110I	CYCGRG	1 cut(s)	751
BmiI	GGNNCC	2 cut(s)	263, 1254
BmrFI	CCNGG	2 cut(s)	267, 1257
BmrI	ACTGGG	1 cut(s)	1236
BmsI	GCATC	1 cut(s)	230
BmuI	ACTGGG	1 cut(s)	1236
BpiI	GAAGAC	2 cut(s)	1139, 1347
BpmI	CTGGAG	2 cut(s)	1025, 1126
Bpu14I	TTCGAA	1 cut(s)	1392
BpuEI	CTTGAG	3 cut(s)	501, 616, 644
BsaJI	CCNNGG	3 cut(s)	25, 265, 1256
BsaXI	ACNNNNNCTCC	2 cut(s)	1121, 1151
Bsc4I	CCNNNNNNNGG	1 cut(s)	499
Bse1I	ACTGG	6 cut(s)	6, 160, 387, 1042, 1143, 1242
Bse3DI	GCAATG	2 cut(s)	823, 1278
BseBI	CCWGG	2 cut(s)	267, 1257
BseDI	CCNNGG	3 cut(s)	25, 265, 1256
BseGI	GGATG	1 cut(s)	693
BseLI	CCNNNNNNNGG	1 cut(s)	499
BseMI	GCAATG	2 cut(s)	823, 1278
BseNI	ACTGG	6 cut(s)	6, 160, 387, 1042, 1143, 1242
BseRI	GAGGAG	3 cut(s)	438, 579, 1129
BseXI	GCAGC	4 cut(s)	539, 692, 1123, 1395
BsgI	GTGCAG	1 cut(s)	1288
Bsh1236I	CGCG	1 cut(s)	249
BshFI	GGCC	1 cut(s)	492
BshNI	GGYRCC	1 cut(s)	261
BsiHKAI	GWGCWC	1 cut(s)	135
BsiHKCI	CYCGRG	1 cut(s)	751
BslFI	GGGAC	2 cut(s)	855, 1294
BslI	CCNNNNNNNGG	1 cut(s)	499
BsmFI	GGGAC	2 cut(s)	855, 1294
BsmI	GAATGC	1 cut(s)	40
BsnI	GGCC	1 cut(s)	492
BsoBI	CYCGRG	1 cut(s)	751
Bsp119I	TTCGAA	1 cut(s)	1392
Bsp1286I	GDGCHC	2 cut(s)	135, 632
Bsp143I	GATC	4 cut(s)	301, 685, 891, 943
BspACI	CCGC	4 cut(s)	62, 197, 249, 911
BspANI	GGCC	1 cut(s)	492
BspFNI	CGCG	1 cut(s)	249
BspHI	TCATGA	1 cut(s)	18
BspLI	GGNNCC	2 cut(s)	263, 1254
BspMAI	CTGCAG	1 cut(s)	682
BspPI	GGATC	2 cut(s)	296, 886
BspT104I	TTCGAA	1 cut(s)	1392
BspT107I	GGYRCC	1 cut(s)	261
BsrDI	GCAATG	2 cut(s)	823, 1278
BsrI	ACTGG	6 cut(s)	6, 160, 387, 1042, 1143, 1242
BssECI	CCNNGG	3 cut(s)	25, 265, 1256
BssMI	GATC	4 cut(s)	301, 685, 891, 943
BssSI	CACGAG	1 cut(s)	1073
BssT1I	CCWWGG	1 cut(s)	25
Bst2BI	CACGAG	1 cut(s)	1073
Bst2UI	CCWGG	2 cut(s)	267, 1257
Bst4CI	ACNGT	5 cut(s)	727, 869, 1298, 1315, 1415
BstBI	TTCGAA	1 cut(s)	1392
BstC8I	GCNNGC	3 cut(s)	345, 394, 459
BstEII	GGTNACC	1 cut(s)	1004
BstF5I	GGATG	1 cut(s)	693
BstFNI	CGCG	1 cut(s)	249
BstKTI	GATC	4 cut(s)	304, 688, 894, 946
BstMBI	GATC	4 cut(s)	301, 685, 891, 943
BstMWI	GCNNNNNNNGC	5 cut(s)	81, 533, 1030, 1120, 1268
BstNI	CCWGG	2 cut(s)	267, 1257
BstPI	GGTNACC	1 cut(s)	1004
BstSCI	CCNGG	2 cut(s)	265, 1255
BstSFI	CTRYAG	1 cut(s)	678
BstUI	CGCG	1 cut(s)	249
BstV1I	GCAGC	4 cut(s)	539, 692, 1123, 1395
BstV2I	GAAGAC	2 cut(s)	1139, 1347
BstX2I	RGATCY	1 cut(s)	891
BstYI	RGATCY	1 cut(s)	891
BsuRI	GGCC	1 cut(s)	492
BtsCI	GGATG	1 cut(s)	693
BtsI	GCAGTG	1 cut(s)	585
BtsIMutI	CAGTG	4 cut(s)	13, 394, 585, 1249
Cac8I	GCNNGC	3 cut(s)	345, 394, 459
CciI	TCATGA	1 cut(s)	18
Csp6I	GTAC	2 cut(s)	262, 916
CviAII	CATG	4 cut(s)	19, 322, 1175, 1366
CviQI	GTAC	2 cut(s)	262, 916
DpnI	GATC	4 cut(s)	303, 687, 893, 945
DpnII	GATC	4 cut(s)	301, 685, 891, 943
EciI	GGCGGA	1 cut(s)	186
Eco130I	CCWWGG	1 cut(s)	25
Eco147I	AGGCCT	1 cut(s)	492
Eco24I	GRGCYC	1 cut(s)	632
Eco32I	GATATC	1 cut(s)	1228
Eco57I	CTGAAG	1 cut(s)	1359
Eco88I	CYCGRG	1 cut(s)	751
Eco91I	GGTNACC	1 cut(s)	1004
EcoO65I	GGTNACC	1 cut(s)	1004
EcoRI	GAATTC	1 cut(s)	148
EcoRII	CCWGG	2 cut(s)	265, 1255
EcoRV	GATATC	1 cut(s)	1228
EcoT14I	CCWWGG	1 cut(s)	25
EcoT38I	GRGCYC	1 cut(s)	632
ErhI	CCWWGG	1 cut(s)	25
FaeI	CATG	4 cut(s)	22, 325, 1178, 1369
FalI	AAGNNNNNCTT	2 cut(s)	606, 638
FaqI	GGGAC	2 cut(s)	855, 1294
FatI	CATG	4 cut(s)	18, 321, 1174, 1365
FbaI	TGATCA	2 cut(s)	685, 943
Fnu4HI	GCNGC	4 cut(s)	528, 681, 1112, 1384
FokI	GGATG	1 cut(s)	680
FriOI	GRGCYC	1 cut(s)	632
Fsp4HI	GCNGC	4 cut(s)	528, 681, 1112, 1384
FspBI	CTAG	6 cut(s)	39, 240, 258, 815, 987, 1380
GluI	GCNGC	4 cut(s)	528, 681, 1112, 1384
GsuI	CTGGAG	2 cut(s)	1025, 1126
HaeIII	GGCC	1 cut(s)	492
Hin1II	CATG	4 cut(s)	22, 325, 1178, 1369
HincII	GTYRAC	2 cut(s)	745, 1203
HindII	GTYRAC	2 cut(s)	745, 1203
HinfI	GANTC	3 cut(s)	165, 1162, 1291
HphI	GGTGA	3 cut(s)	125, 715, 1310
Hpy166II	GTNNAC	7 cut(s)	101, 164, 191, 675, 745, 1203, 1354
Hpy188I	TCNGA	7 cut(s)	231, 301, 380, 1059, 1161, 1420, 1427
Hpy188III	TCNNGA	7 cut(s)	19, 518, 623, 697, 1151, 1250, 1361
Hpy8I	GTNNAC	7 cut(s)	101, 164, 191, 675, 745, 1203, 1354
Hpy99I	CGWCG	1 cut(s)	84
HpyAV	CCTTC	3 cut(s)	319, 1220, 1276
HpyCH4III	ACNGT	5 cut(s)	727, 869, 1298, 1315, 1415
HpyCH4IV	ACGT	4 cut(s)	79, 187, 193, 1011
HpyCH4V	TGCA	7 cut(s)	184, 343, 548, 680, 808, 828, 1305
HpyF10VI	GCNNNNNNNGC	5 cut(s)	81, 533, 1030, 1120, 1268
HpySE526I	ACGT	4 cut(s)	79, 187, 193, 1011
Hsp92II	CATG	4 cut(s)	22, 325, 1178, 1369
KpnI	GGTACC	1 cut(s)	265
Ksp22I	TGATCA	2 cut(s)	685, 943
Kzo9I	GATC	4 cut(s)	301, 685, 891, 943
LmnI	GCTCC	2 cut(s)	375, 1142
Lsp1109I	GCAGC	4 cut(s)	539, 692, 1123, 1395
LweI	GCATC	1 cut(s)	230
MaeI	CTAG	6 cut(s)	39, 240, 258, 815, 987, 1380
MaeII	ACGT	4 cut(s)	79, 187, 193, 1011
MaeIII	GTNAC	7 cut(s)	253, 580, 721, 956, 1004, 1292, 1298
MalI	GATC	4 cut(s)	303, 687, 893, 945
MboI	GATC	4 cut(s)	301, 685, 891, 943
MboII	GAAGA	6 cut(s)	157, 393, 717, 941, 1139, 1352
MfeI	CAATTG	1 cut(s)	642
MflI	RGATCY	1 cut(s)	891
MhlI	GDGCHC	2 cut(s)	135, 632
MlyI	GAGTC	2 cut(s)	159, 1300
MroXI	GAANNNNTTC	1 cut(s)	282
MseI	TTAA	3 cut(s)	921, 1400, 1409
MslI	CAYNNNNRTG	2 cut(s)	286, 606
MspA1I	CMGCKG	2 cut(s)	683, 1386
MspR9I	CCNGG	2 cut(s)	267, 1257
MunI	CAATTG	1 cut(s)	642
Mva1269I	GAATGC	1 cut(s)	40
MvaI	CCWGG	2 cut(s)	267, 1257
MvnI	CGCG	1 cut(s)	249
MwoI	GCNNNNNNNGC	5 cut(s)	81, 533, 1030, 1120, 1268
NdeII	GATC	4 cut(s)	301, 685, 891, 943
NlaIII	CATG	4 cut(s)	22, 325, 1178, 1369
NlaIV	GGNNCC	2 cut(s)	263, 1254
NmuCI	GTSAC	4 cut(s)	580, 721, 1292, 1298
NspV	TTCGAA	1 cut(s)	1392
PagI	TCATGA	1 cut(s)	18
PceI	AGGCCT	1 cut(s)	492
PctI	GAATGC	1 cut(s)	40
PdmI	GAANNNNTTC	1 cut(s)	282
PfeI	GAWTC	1 cut(s)	1162
PkrI	GCNGC	4 cut(s)	529, 682, 1113, 1385
PleI	GAGTC	2 cut(s)	159, 1299
PpsI	GAGTC	2 cut(s)	159, 1299
Psp6I	CCWGG	2 cut(s)	265, 1255
PspEI	GGTNACC	1 cut(s)	1004
PspGI	CCWGG	2 cut(s)	265, 1255
PspN4I	GGNNCC	2 cut(s)	263, 1254
PsrI	GAACNNNNNNTAC	2 cut(s)	496, 528
PstI	CTGCAG	1 cut(s)	682
PsuI	RGATCY	1 cut(s)	891
PvuII	CAGCTG	2 cut(s)	683, 1386
RsaI	GTAC	2 cut(s)	263, 917
RsaNI	GTAC	2 cut(s)	262, 916
RseI	CAYNNNNRTG	2 cut(s)	286, 606
SaqAI	TTAA	3 cut(s)	921, 1400, 1409
SatI	GCNGC	4 cut(s)	528, 681, 1112, 1384
Sau3AI	GATC	4 cut(s)	301, 685, 891, 943
ScaI	AGTACT	1 cut(s)	917
SchI	GAGTC	2 cut(s)	159, 1300
ScrFI	CCNGG	2 cut(s)	267, 1257
SduI	GDGCHC	2 cut(s)	135, 632
SfaNI	GCATC	1 cut(s)	230
SfcI	CTRYAG	1 cut(s)	678
SfuI	TTCGAA	1 cut(s)	1392
SmiMI	CAYNNNNRTG	2 cut(s)	286, 606
SmlI	CTYRAG	3 cut(s)	516, 595, 623
SmoI	CTYRAG	3 cut(s)	516, 595, 623
SseBI	AGGCCT	1 cut(s)	492
SsiI	CCGC	4 cut(s)	62, 197, 249, 911
SspI	AATATT	2 cut(s)	637, 1189
SspMI	CTAG	6 cut(s)	39, 240, 258, 815, 987, 1380
StuI	AGGCCT	1 cut(s)	492
StyD4I	CCNGG	2 cut(s)	265, 1255
StyI	CCWWGG	1 cut(s)	25
TaaI	ACNGT	5 cut(s)	727, 869, 1298, 1315, 1415
TaiI	ACGT	4 cut(s)	82, 190, 196, 1014
TaqI	TCGA	4 cut(s)	135, 421, 993, 1392
TatI	WGTACW	1 cut(s)	915
TfiI	GAWTC	1 cut(s)	1162
Tru1I	TTAA	3 cut(s)	921, 1400, 1409
Tru9I	TTAA	3 cut(s)	921, 1400, 1409
TscAI	CASTG	4 cut(s)	13, 394, 585, 1249
TseFI	GTSAC	4 cut(s)	580, 721, 1292, 1298
TseI	GCWGC	4 cut(s)	527, 680, 1111, 1383
Tsp45I	GTSAC	4 cut(s)	580, 721, 1292, 1298
TspDTI	ATGAA	8 cut(s)	7, 35, 83, 338, 655, 1076, 1191, 1365
TspRI	CASTG	4 cut(s)	13, 394, 585, 1249
XapI	RAATTY	4 cut(s)	148, 938, 1235, 1330
XmnI	GAANNNNTTC	1 cut(s)	282
XspI	CTAG	6 cut(s)	39, 240, 258, 815, 987, 1380
ZrmI	AGTACT	1 cut(s)	917

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