Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004539

Physical Location & Seq

Genomic Coordinates Forward (+)

5299620 .. 5301370

Gene Structure 1751 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00082490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1188 bp

ATGGATCAGCAGCTGATGATGGTGAAGAATGAAGAGACCCCAGCTGGGAGGCGCCGCTTGAGCACCGCTGATCGCGAGGCAAACCAGGCAGCGCGGTGTGTCAAGAGACGCCGAAGAGACCCAGCTGCTATTGCTGTTGACATTAGCAAGAGTGAGCTGCCTCTGCCAGAAAAGCCAGCTGATCCAGCGTCTGCAACTACCACAATGAAGAGAAGCTCAAGGTTTCGTGGCAAGAAGAAAGGGAAACAAGTCTACCTTGGGGCATATGATGAAGAAGAGTCTGCTGCAAGAGCCTATGATTTAGCTGCACTCAAGTACTGGGGAACCTCAACTTTCACAAACTTCCCGATATCAGACTATGAGAACGAAATTGAGATCATGCAATCTGTAACAAAAGAAGAATATCTGGCCTCTTTAAGAAGAAAGAGCAGTGGCTTTTCAAGAGGTGTGTCCAAGTACAGAGGAGTAGCAAGGCACCATCACAATGGCAGATGGGAAGCAAGAATCGGAAGAGTTTTCGGAAACAAGTACCTCTACCTTGGCACTTACAGCACCCAAGAGGAAGCAGCTCGCGCCTATGACATTGCGGCAATTGAGTACAGAGGGATCAATGCTGTGACCAACTTCGACTTGAGCTCTTACATTAGATGGTTAAAGCCAAAAGTAGACAGCACAATAGCAGCTCAAGAATTAGAGACAGTTGCAGAGCCTGAGAATATGCCATTCAGGGCCAGCAACTACATCCCAACAGAGGAATCCCCCTTGTCACACACAAACCCTTTTGCCTCTGACTACTTGAACTCACCAAAGCAAGAAGTGTCCAGGAGCAACGTCCCTCTCGACACAAGCAGCAAGTCATCCTCTCCAACCGCACTTGGCCTCCTCCTTCAGTCTTCTATATTCAGAGAACTGGTTCAGAAGAACTCGAATTACTCGGAGGATGAAAGCACCGATGGAGAAGAACAAAAGAACCAAGCACAAGGTGGAAGTGACGACGAGTATGGTGGACCTTTTTCATATGACCGAATTGGGGCCAATAGCCCGTTTGTTTCCTCTACCAACAGGGAAAGCATAGAACTGCAAGAAAGAGAGCTCCTTCACTCCCCATGGAACAGCTTCGCAAGCACGATGCTGCTTAATCAAACAACAAAAGCAGATGCCACAGAGTCTCTGTTCTTCTTTTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006109 GO:0006110 GO:0006140 GO:0006355 GO:0006629 GO:0006638 GO:0006639 GO:0006641 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009743 GO:0009744 GO:0009889 GO:0009891 GO:0009893 GO:0009894 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019220 GO:0019222 GO:0019432 GO:0030808 GO:0030811 GO:0031323 GO:0031326 GO:0031329 GO:0034285 GO:0042221 GO:0042325 GO:0043467 GO:0043470 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0045017 GO:0046460 GO:0046463 GO:0046486 GO:0048518 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051174 GO:0051193 GO:0051196 GO:0051252 GO:0060255 GO:0062012 GO:0065007 GO:0071704 GO:0080090 GO:0097159 GO:0140110 GO:1900371 GO:1900542 GO:1901363 GO:1901576 GO:1901700 GO:1901957 GO:1901959 GO:1903506 GO:1903578 GO:2000112 GO:2001141 GO:2001169

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

395

Amino Acids

44.39

Weight (kDa)

6.1

Isoelectric Point (pI)

61.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	74 - 108	6.5e-06	AP2 domain
AP2	PF00847	151 - 202	2e-11	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

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Orthologous Genes (Group: OG0004539)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g31880 FvH4_6g49200
malus_domestica	MD09G1047600.v1.1 MD09G1047800.v1.1 MD13G1078300.v1.1 MD17G1047900.v1.1
prunus_persica	Prupe.1G268800_v2.0.a1 Prupe.3G271200_v2.0.a1 Prupe.3G271400_v2.0.a1
pyrus_communis	pycom17g04250 pycom17g04270
rosa_chinensis	RchiOBHm_Chr2g0169071 RchiOBHm_Chr4g0440541
rosa_laevigata	RLG00000006169 RLG00000021831
rosa_multiflora	Rmu_co8472159.1_g000001 Rmu_sc0016635.1_g000002 Rmu_sc0037701.1_g000001
rosa_roxburghii	Rroxscaffold_2G00082490 Rroxscaffold_3G00226840 Rroxscaffold_5G00381370
rosa_rugosa	Rorug02G0536600 Rorug04G0326600
rosa_samantha	Rh2AG608500 Rh2BG621300 Rh2CG590100 Rh2DG632000 Rh4CG405600 Rh4DG384600
rosa_wichuraiana	Rw2G050450 Rw4G032380 Rw4G032480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	51, 474
AccI	GTMKAC	2 cut(s)	252, 666
AccII	CGCG	3 cut(s)	75, 94, 573
AciI	CCGC	5 cut(s)	55, 66, 94, 587, 870
AclWI	GGATC	3 cut(s)	12, 176, 614
AcuI	CTGAAG	1 cut(s)	872
AcyI	GRCGYC	2 cut(s)	52, 109
AdeI	CACNNNGTG	1 cut(s)	983
AfaI	GTAC	4 cut(s)	317, 458, 530, 599
AfiI	CCNNNNNNNGG	3 cut(s)	45, 751, 1030
AgsI	TTSAA	2 cut(s)	441, 799
AjnI	CCWGG	2 cut(s)	84, 821
Alw21I	GWGCWC	3 cut(s)	65, 638, 1095
Alw26I	GTCTC	5 cut(s)	29, 100, 111, 689, 1173
AlwI	GGATC	3 cut(s)	12, 176, 614
AlwNI	CAGNNNCTG	3 cut(s)	13, 191, 710
AoxI	GGCC	4 cut(s)	408, 729, 877, 1032
Asp700I	GAANNNNTTC	2 cut(s)	912, 1115
AspLEI	GCGC	3 cut(s)	54, 94, 575
AspS9I	GGNCC	3 cut(s)	729, 1007, 1032
AsuHPI	GGTGA	2 cut(s)	34, 795
AvaII	GGWCC	1 cut(s)	1007
BanI	GGYRCC	2 cut(s)	51, 474
BanII	GRGCYC	2 cut(s)	638, 1095
BbsI	GAAGAC	1 cut(s)	885
Bbv12I	GWGCWC	3 cut(s)	65, 638, 1095
BccI	CCATC	5 cut(s)	13, 486, 486, 642, 947
BciT130I	CCWGG	2 cut(s)	86, 823
BcoDI	GTCTC	5 cut(s)	29, 100, 111, 689, 1173
BfoI	RGCGCY	1 cut(s)	55
BmcAI	AGTACT	1 cut(s)	317
Bme1390I	CCNGG	2 cut(s)	86, 823
Bme18I	GGWCC	1 cut(s)	1007
BmgT120I	GGNCC	3 cut(s)	729, 1007, 1032
BmiI	GGNNCC	4 cut(s)	53, 325, 476, 1033
BmrFI	CCNGG	2 cut(s)	86, 823
BmrI	ACTGGG	1 cut(s)	328
BmsI	GCATC	2 cut(s)	1119, 1147
BmuI	ACTGGG	1 cut(s)	328
BpiI	GAAGAC	1 cut(s)	885
BpuEI	CTTGAG	5 cut(s)	79, 202, 296, 652, 669
BsaHI	GRCGYC	2 cut(s)	52, 109
BsaI	GGTCTC	2 cut(s)	29, 111
BsaJI	CCNNGG	3 cut(s)	256, 538, 1106
BsaXI	ACNNNNNCTCC	2 cut(s)	864, 894
Bsc4I	CCNNNNNNNGG	3 cut(s)	45, 751, 1030
Bse1I	ACTGG	2 cut(s)	323, 915
Bse3DI	GCAATG	1 cut(s)	582
BseBI	CCWGG	2 cut(s)	86, 823
BseDI	CCNNGG	3 cut(s)	256, 538, 1106
BseGI	GGATG	3 cut(s)	741, 857, 946
BseLI	CCNNNNNNNGG	3 cut(s)	45, 751, 1030
BseMI	GCAATG	1 cut(s)	582
BseMII	CTCAG	1 cut(s)	702
BseNI	ACTGG	2 cut(s)	323, 915
BseRI	GAGGAG	2 cut(s)	477, 872
BseYI	CCCAGC	3 cut(s)	40, 44, 121
BsgI	GTGCAG	1 cut(s)	291
Bsh1236I	CGCG	3 cut(s)	75, 94, 573
BshFI	GGCC	4 cut(s)	410, 731, 879, 1034
BshNI	GGYRCC	2 cut(s)	51, 474
BsiHKAI	GWGCWC	3 cut(s)	65, 638, 1095
BslFI	GGGAC	1 cut(s)	818
BslI	CCNNNNNNNGG	3 cut(s)	45, 751, 1030
BsmAI	GTCTC	5 cut(s)	29, 100, 111, 689, 1173
BsmBI	CGTCTC	1 cut(s)	100
BsmFI	GGGAC	1 cut(s)	818
BsnI	GGCC	4 cut(s)	410, 731, 879, 1034
Bso31I	GGTCTC	2 cut(s)	29, 111
Bsp1286I	GDGCHC	3 cut(s)	65, 638, 1095
Bsp143I	GATC	5 cut(s)	4, 70, 181, 375, 606
Bsp19I	CCATGG	1 cut(s)	1106
Bsp68I	TCGCGA	1 cut(s)	75
BspACI	CCGC	5 cut(s)	55, 66, 94, 587, 870
BspANI	GGCC	4 cut(s)	410, 731, 879, 1034
BspCNI	CTCAG	1 cut(s)	703
BspFNI	CGCG	3 cut(s)	75, 94, 573
BspLI	GGNNCC	4 cut(s)	53, 325, 476, 1033
BspPI	GGATC	3 cut(s)	12, 176, 614
BspT107I	GGYRCC	2 cut(s)	51, 474
BspTNI	GGTCTC	2 cut(s)	29, 111
BsrDI	GCAATG	1 cut(s)	582
BsrI	ACTGG	2 cut(s)	323, 915
BssECI	CCNNGG	3 cut(s)	256, 538, 1106
BssMI	GATC	5 cut(s)	4, 70, 181, 375, 606
BssNI	GRCGYC	2 cut(s)	52, 109
BssT1I	CCWWGG	3 cut(s)	256, 538, 1106
Bst2UI	CCWGG	2 cut(s)	86, 823
Bst4CI	ACNGT	1 cut(s)	700
Bst6I	CTCTTC	5 cut(s)	27, 109, 203, 270, 505
BstACI	GRCGYC	2 cut(s)	52, 109
BstC8I	GCNNGC	4 cut(s)	177, 571, 733, 1123
BstDEI	CTNAG	2 cut(s)	711, 1185
BstDSI	CCRYGG	1 cut(s)	1106
BstF5I	GGATG	3 cut(s)	741, 857, 946
BstFNI	CGCG	3 cut(s)	75, 94, 573
BstH2I	RGCGCY	1 cut(s)	55
BstHHI	GCGC	3 cut(s)	54, 94, 575
BstKTI	GATC	5 cut(s)	7, 73, 184, 378, 609
BstMAI	GTCTC	5 cut(s)	29, 100, 111, 689, 1173
BstMBI	GATC	5 cut(s)	4, 70, 181, 375, 606
BstNI	CCWGG	2 cut(s)	86, 823
BstSCI	CCNGG	2 cut(s)	84, 821
BstUI	CGCG	3 cut(s)	75, 94, 573
BstV2I	GAAGAC	1 cut(s)	885
BstXI	CCANNNNNNTGG	1 cut(s)	485
BsuRI	GGCC	4 cut(s)	410, 731, 879, 1034
BtgI	CCRYGG	1 cut(s)	1106
BtsCI	GGATG	3 cut(s)	741, 857, 946
BtsI	GCAGTG	1 cut(s)	436
BtsIMutI	CAGTG	1 cut(s)	436
BtuMI	TCGCGA	1 cut(s)	75
Cac8I	GCNNGC	4 cut(s)	177, 571, 733, 1123
CaiI	CAGNNNCTG	3 cut(s)	13, 191, 710
CfoI	GCGC	3 cut(s)	54, 94, 575
Cfr13I	GGNCC	3 cut(s)	729, 1007, 1032
CseI	GACGC	2 cut(s)	117, 177
Csp6I	GTAC	4 cut(s)	316, 457, 529, 598
CviAII	CATG	2 cut(s)	379, 1107
CviQI	GTAC	4 cut(s)	316, 457, 529, 598
DdeI	CTNAG	2 cut(s)	711, 1185
DinI	GGCGCC	1 cut(s)	53
DpnI	GATC	5 cut(s)	6, 72, 183, 377, 608
DpnII	GATC	5 cut(s)	4, 70, 181, 375, 606
DraIII	CACNNNGTG	1 cut(s)	983
Eam1104I	CTCTTC	5 cut(s)	27, 109, 203, 270, 505
EarI	CTCTTC	5 cut(s)	27, 109, 203, 270, 505
Ecl136II	GAGCTC	2 cut(s)	636, 1093
Eco130I	CCWWGG	3 cut(s)	256, 538, 1106
Eco24I	GRGCYC	2 cut(s)	638, 1095
Eco31I	GGTCTC	2 cut(s)	29, 111
Eco32I	GATATC	1 cut(s)	351
Eco47I	GGWCC	1 cut(s)	1007
Eco53kI	GAGCTC	2 cut(s)	636, 1093
Eco57I	CTGAAG	1 cut(s)	872
EcoICRI	GAGCTC	2 cut(s)	636, 1093
EcoRII	CCWGG	2 cut(s)	84, 821
EcoRV	GATATC	1 cut(s)	351
EcoT14I	CCWWGG	3 cut(s)	256, 538, 1106
EcoT38I	GRGCYC	2 cut(s)	638, 1095
EgeI	GGCGCC	1 cut(s)	53
EheI	GGCGCC	1 cut(s)	53
ErhI	CCWWGG	3 cut(s)	256, 538, 1106
Esp3I	CGTCTC	1 cut(s)	100
FaeI	CATG	2 cut(s)	382, 1110
FalI	AAGNNNNNCTT	2 cut(s)	240, 272
FaqI	GGGAC	1 cut(s)	818
FatI	CATG	2 cut(s)	378, 1106
FauNDI	CATATG	2 cut(s)	265, 1018
FblI	GTMKAC	2 cut(s)	252, 666
FokI	GGATG	3 cut(s)	728, 844, 953
FriOI	GRGCYC	2 cut(s)	638, 1095
GlaI	GCGC	3 cut(s)	53, 93, 574
GsaI	CCCAGC	3 cut(s)	44, 48, 125
HaeII	RGCGCY	1 cut(s)	55
HaeIII	GGCC	4 cut(s)	410, 731, 879, 1034
HgaI	GACGC	2 cut(s)	117, 177
HhaI	GCGC	3 cut(s)	54, 94, 575
Hin1I	GRCGYC	2 cut(s)	52, 109
Hin1II	CATG	2 cut(s)	382, 1110
Hin6I	GCGC	3 cut(s)	52, 92, 573
HinP1I	GCGC	3 cut(s)	52, 92, 573
HincII	GTYRAC	1 cut(s)	139
HindII	GTYRAC	1 cut(s)	139
HinfI	GANTC	4 cut(s)	278, 504, 755, 1166
HphI	GGTGA	2 cut(s)	34, 795
Hpy166II	GTNNAC	4 cut(s)	139, 253, 667, 1007
Hpy188I	TCNGA	7 cut(s)	355, 509, 521, 790, 905, 918, 937
Hpy188III	TCNNGA	6 cut(s)	74, 103, 346, 441, 686, 839
Hpy8I	GTNNAC	4 cut(s)	139, 253, 667, 1007
Hpy99I	CGWCG	1 cut(s)	998
HpyAV	CCTTC	2 cut(s)	896, 1106
HpyCH4III	ACNGT	1 cut(s)	700
HpyCH4IV	ACGT	1 cut(s)	831
HpyCH4V	TGCA	6 cut(s)	194, 287, 308, 382, 704, 1081
HpyF3I	CTNAG	2 cut(s)	711, 1185
HpySE526I	ACGT	1 cut(s)	831
Hsp92I	GRCGYC	2 cut(s)	52, 109
Hsp92II	CATG	2 cut(s)	382, 1110
HspAI	GCGC	3 cut(s)	52, 92, 573
KasI	GGCGCC	1 cut(s)	51
Kzo9I	GATC	5 cut(s)	4, 70, 181, 375, 606
LmnI	GCTCC	2 cut(s)	825, 1098
LweI	GCATC	2 cut(s)	1119, 1147
MaeII	ACGT	1 cut(s)	831
MaeIII	GTNAC	4 cut(s)	388, 616, 765, 989
MalI	GATC	5 cut(s)	6, 72, 183, 377, 608
MboI	GATC	5 cut(s)	4, 70, 181, 375, 606
MfeI	CAATTG	1 cut(s)	591
MhlI	GDGCHC	3 cut(s)	65, 638, 1095
MluCI	AATT	5 cut(s)	369, 591, 689, 928, 1026
Mly113I	GGCGCC	1 cut(s)	52
MlyI	GAGTC	2 cut(s)	287, 1175
MmeI	TCCRAC	1 cut(s)	890
MroXI	GAANNNNTTC	2 cut(s)	912, 1115
MseI	TTAA	3 cut(s)	416, 653, 1137
MslI	CAYNNNNRTG	1 cut(s)	483
MspA1I	CMGCKG	5 cut(s)	13, 44, 68, 125, 179
MspR9I	CCNGG	2 cut(s)	86, 823
MunI	CAATTG	1 cut(s)	591
MvaI	CCWGG	2 cut(s)	86, 823
MvnI	CGCG	3 cut(s)	75, 94, 573
NarI	GGCGCC	1 cut(s)	52
NcoI	CCATGG	1 cut(s)	1106
NdeI	CATATG	2 cut(s)	265, 1018
NdeII	GATC	5 cut(s)	4, 70, 181, 375, 606
NlaIII	CATG	2 cut(s)	382, 1110
NlaIV	GGNNCC	4 cut(s)	53, 325, 476, 1033
NmuCI	GTSAC	3 cut(s)	616, 765, 989
NruI	TCGCGA	1 cut(s)	75
PcsI	WCGNNNNNNNCGW	1 cut(s)	837
PdmI	GAANNNNTTC	2 cut(s)	912, 1115
PfeI	GAWTC	2 cut(s)	504, 755
PfoI	TCCNGGA	1 cut(s)	821
PleI	GAGTC	2 cut(s)	286, 1174
PluTI	GGCGCC	1 cut(s)	55
PpsI	GAGTC	2 cut(s)	286, 1174
Psp124BI	GAGCTC	2 cut(s)	638, 1095
Psp6I	CCWGG	2 cut(s)	84, 821
PspFI	CCCAGC	3 cut(s)	40, 44, 121
PspGI	CCWGG	2 cut(s)	84, 821
PspN4I	GGNNCC	4 cut(s)	53, 325, 476, 1033
PspPI	GGNCC	3 cut(s)	729, 1007, 1032
PsrI	GAACNNNNNNTAC	2 cut(s)	914, 946
PstNI	CAGNNNCTG	3 cut(s)	13, 191, 710
PvuII	CAGCTG	4 cut(s)	13, 44, 125, 179
RruI	TCGCGA	1 cut(s)	75
RsaI	GTAC	4 cut(s)	317, 458, 530, 599
RsaNI	GTAC	4 cut(s)	316, 457, 529, 598
RseI	CAYNNNNRTG	1 cut(s)	483
SacI	GAGCTC	2 cut(s)	638, 1095
SaqAI	TTAA	3 cut(s)	416, 653, 1137
Sau3AI	GATC	5 cut(s)	4, 70, 181, 375, 606
Sau96I	GGNCC	3 cut(s)	729, 1007, 1032
ScaI	AGTACT	1 cut(s)	317
SchI	GAGTC	2 cut(s)	287, 1175
ScrFI	CCNGG	2 cut(s)	86, 823
SduI	GDGCHC	3 cut(s)	65, 638, 1095
SfaNI	GCATC	2 cut(s)	1119, 1147
SfoI	GGCGCC	1 cut(s)	53
SinI	GGWCC	1 cut(s)	1007
SmiMI	CAYNNNNRTG	1 cut(s)	483
SmlI	CTYRAG	5 cut(s)	58, 217, 311, 631, 684
SmoI	CTYRAG	5 cut(s)	58, 217, 311, 631, 684
Sse9I	AATT	5 cut(s)	369, 591, 689, 928, 1026
SsiI	CCGC	5 cut(s)	55, 66, 94, 587, 870
SspDI	GGCGCC	1 cut(s)	51
SstI	GAGCTC	2 cut(s)	638, 1095
StyD4I	CCNGG	2 cut(s)	84, 821
StyI	CCWWGG	3 cut(s)	256, 538, 1106
TaaI	ACNGT	1 cut(s)	700
TaiI	ACGT	1 cut(s)	834
TaqI	TCGA	3 cut(s)	627, 840, 926
TaqII	GACCGA	1 cut(s)	1038
TasI	AATT	5 cut(s)	369, 591, 689, 928, 1026
TatI	WGTACW	3 cut(s)	315, 456, 597
TauI	GCSGC	2 cut(s)	57, 590
TfiI	GAWTC	2 cut(s)	504, 755
Tru1I	TTAA	3 cut(s)	416, 653, 1137
Tru9I	TTAA	3 cut(s)	416, 653, 1137
TscAI	CASTG	1 cut(s)	436
TseFI	GTSAC	3 cut(s)	616, 765, 989
Tsp45I	GTSAC	3 cut(s)	616, 765, 989
TspDTI	ATGAA	5 cut(s)	45, 221, 285, 957, 1005
TspRI	CASTG	1 cut(s)	436
VpaK11BI	GGWCC	1 cut(s)	1007
XcmI	CCANNNNNNNNNTGG	1 cut(s)	980
XmiI	GTMKAC	2 cut(s)	252, 666
XmnI	GAANNNNTTC	2 cut(s)	912, 1115
ZrmI	AGTACT	1 cut(s)	317

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