Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0003146

Physical Location & Seq

Genomic Coordinates Forward (+)

47429007 .. 47437789

Gene Structure 8783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00253410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGTATAGAGGAGTTCGAATGCGTCAATGGGGAAAATGGGTATCAGAAATCAGAGAGCCAAGAAAGAAGTCGAGAATATGGCTCGGAACGTTTGCTACAGCCGAAATGGCAGCTCGAGCTCACGACGTTGCAGCTCTGACGATCAAAGGCCGCTCGGCTTATCTCAACTTCCCTGAGCTAGCTCAGGAACTTCCTTGTGCCGCTAGCTCATTGCCGAAAGACATTCAAGCTGCTGCAGCTAAAGCTGCTGCTCTTAGCTACCCTAGCTGCAGCAGCAGCAGCAGCAGTCATGAAGCTCATGAATCCAAAACCGAACCGGCTCAAGATTCATTGTCTTCATCAAAACAGGAAGATGACTCCTTTTTTGACCTTCCTGATCTGCTGTTAGACGTTGGAAATTATCGTAGTACTCATGAGTATTTTTCGCTTGTGGATGCTAGTCTCAGCCTAGAAGAGCCTTTCTTATGGGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0043565 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

157

Amino Acids

17.43

Weight (kDa)

5.38

Isoelectric Point (pI)

53.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	2 - 50	4.4e-14	AP2 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003146)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77200 AT2G25820 AT2G35700 AT3G16280 AT3G16280 AT3G60490 AT4G16750 AT4G32800
fragaria_vesca	FvH4_5g19440 FvH4_5g19460
malus_domestica	MD04G1060400.v1.1 MD06G1053600.v1.1
prunus_persica	Prupe.5G065300_v2.0.a1
pyrus_communis	pycom04g05400 pycom06g04520
rosa_chinensis	RchiOBHm_Chr7g0203971 RchiOBHm_Chr7g0204031
rosa_laevigata	RLG00000003493 RLG00000003495
rosa_multiflora	Rmu_sc0001311.1_g000005 Rmu_sc0001843.1_g000006 Rmu_sc0004074.1_g000008
rosa_roxburghii	Rroxscaffold_3G00253410 Rroxscaffold_3G00253430
rosa_rugosa	Rorug07G0074800 Rorug07G0079700 Rorug07G0080000
rosa_samantha	Rh7AG209700 Rh7AG210000 Rh7BG203400 Rh7BG208400 Rh7BG208500 Rh7CG222200 Rh7CG222500 Rh7DG216700
rosa_wichuraiana	Rw7G018260 Rw7G018280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	153
AciI	CCGC	2 cut(s)	151, 201
AclI	AACGTT	1 cut(s)	89
AfaI	GTAC	1 cut(s)	409
AgsI	TTSAA	1 cut(s)	227
Alw21I	GWGCWC	1 cut(s)	121
Alw26I	GTCTC	1 cut(s)	446
Ama87I	CYCGRG	1 cut(s)	114
AoxI	GGCC	1 cut(s)	148
ArsI	GACNNNNNNTTYG	2 cut(s)	347, 379
AsuII	TTCGAA	1 cut(s)	16
AsuNHI	GCTAGC	2 cut(s)	178, 203
AvaI	CYCGRG	1 cut(s)	114
BanII	GRGCYC	1 cut(s)	121
BbsI	GAAGAC	1 cut(s)	327
Bbv12I	GWGCWC	1 cut(s)	121
BcoDI	GTCTC	1 cut(s)	446
BfaI	CTAG	5 cut(s)	179, 204, 264, 438, 449
BfmI	CTRYAG	3 cut(s)	96, 234, 268
BglI	GCCNNNNNGGC	1 cut(s)	107
BmcAI	AGTACT	1 cut(s)	409
BmeT110I	CYCGRG	1 cut(s)	114
BmsI	GCATC	1 cut(s)	424
BmtI	GCTAGC	2 cut(s)	182, 207
BpiI	GAAGAC	1 cut(s)	327
Bpu10I	CCTNAGC	2 cut(s)	174, 183
Bpu14I	TTCGAA	1 cut(s)	16
BpuEI	CTTGAG	1 cut(s)	306
Bse118I	RCCGGY	1 cut(s)	316
Bse3DI	GCAATG	1 cut(s)	209
BseGI	GGATG	1 cut(s)	439
BseMI	GCAATG	1 cut(s)	209
BseMII	CTCAG	3 cut(s)	165, 197, 457
BseRI	GAGGAG	1 cut(s)	24
BshFI	GGCC	1 cut(s)	150
BsiHKAI	GWGCWC	1 cut(s)	121
BsiHKCI	CYCGRG	1 cut(s)	114
BsiSI	CCGG	1 cut(s)	317
BsmAI	GTCTC	1 cut(s)	446
BsmI	GAATGC	1 cut(s)	24
BsnI	GGCC	1 cut(s)	150
BsoBI	CYCGRG	1 cut(s)	114
Bsp119I	TTCGAA	1 cut(s)	16
Bsp1286I	GDGCHC	1 cut(s)	121
Bsp143I	GATC	2 cut(s)	141, 376
BspACI	CCGC	2 cut(s)	151, 201
BspANI	GGCC	1 cut(s)	150
BspCNI	CTCAG	3 cut(s)	166, 196, 456
BspHI	TCATGA	3 cut(s)	289, 298, 412
BspMAI	CTGCAG	2 cut(s)	238, 272
BspOI	GCTAGC	2 cut(s)	182, 207
BspQI	GCTCTTC	1 cut(s)	447
BspT104I	TTCGAA	1 cut(s)	16
BsrBI	CCGCTC	1 cut(s)	153
BsrDI	GCAATG	1 cut(s)	209
BsrFI	RCCGGY	1 cut(s)	316
BssAI	RCCGGY	1 cut(s)	316
BssMI	GATC	2 cut(s)	141, 376
Bst6I	CTCTTC	1 cut(s)	447
BstBI	TTCGAA	1 cut(s)	16
BstC8I	GCNNGC	2 cut(s)	180, 205
BstDEI	CTNAG	4 cut(s)	174, 183, 254, 443
BstF5I	GGATG	1 cut(s)	439
BstKTI	GATC	2 cut(s)	144, 379
BstMAI	GTCTC	1 cut(s)	446
BstMBI	GATC	2 cut(s)	141, 376
BstSFI	CTRYAG	3 cut(s)	96, 234, 268
BstV2I	GAAGAC	1 cut(s)	327
BsuRI	GGCC	1 cut(s)	150
BtsCI	GGATG	1 cut(s)	439
Cac8I	GCNNGC	2 cut(s)	180, 205
CciI	TCATGA	3 cut(s)	289, 298, 412
Cfr10I	RCCGGY	1 cut(s)	316
CseI	GACGC	1 cut(s)	11
Csp6I	GTAC	1 cut(s)	408
CviAII	CATG	3 cut(s)	290, 299, 413
CviQI	GTAC	1 cut(s)	408
DdeI	CTNAG	4 cut(s)	174, 183, 254, 443
DpnI	GATC	2 cut(s)	143, 378
DpnII	GATC	2 cut(s)	141, 376
Eam1104I	CTCTTC	1 cut(s)	447
EarI	CTCTTC	1 cut(s)	447
Ecl136II	GAGCTC	1 cut(s)	119
Eco24I	GRGCYC	1 cut(s)	121
Eco53kI	GAGCTC	1 cut(s)	119
Eco88I	CYCGRG	1 cut(s)	114
EcoICRI	GAGCTC	1 cut(s)	119
EcoT38I	GRGCYC	1 cut(s)	121
FaeI	CATG	3 cut(s)	293, 302, 416
FaiI	YATR	6 cut(s)	6, 79, 291, 300, 414, 466
FatI	CATG	3 cut(s)	289, 298, 412
FokI	GGATG	1 cut(s)	446
FriOI	GRGCYC	1 cut(s)	121
FspBI	CTAG	5 cut(s)	179, 204, 264, 438, 449
HaeIII	GGCC	1 cut(s)	150
HapII	CCGG	1 cut(s)	317
HgaI	GACGC	1 cut(s)	11
Hin1II	CATG	3 cut(s)	293, 302, 416
HinfI	GANTC	3 cut(s)	302, 326, 356
HpaII	CCGG	1 cut(s)	317
Hpy188I	TCNGA	4 cut(s)	46, 53, 86, 138
Hpy188III	TCNNGA	8 cut(s)	72, 122, 185, 290, 299, 323, 374, 413
Hpy99I	CGWCG	1 cut(s)	128
HpyAV	CCTTC	1 cut(s)	380
HpyCH4IV	ACGT	3 cut(s)	89, 126, 390
HpyCH4V	TGCA	3 cut(s)	131, 236, 270
HpyF3I	CTNAG	4 cut(s)	174, 183, 254, 443
HpySE526I	ACGT	3 cut(s)	89, 126, 390
Hsp92II	CATG	3 cut(s)	293, 302, 416
Kzo9I	GATC	2 cut(s)	141, 376
LguI	GCTCTTC	1 cut(s)	447
LpnPI	CCDG	5 cut(s)	170, 186, 330, 332, 387
LweI	GCATC	1 cut(s)	424
MaeI	CTAG	5 cut(s)	179, 204, 264, 438, 449
MaeII	ACGT	3 cut(s)	89, 126, 390
MalI	GATC	2 cut(s)	143, 378
MbiI	CCGCTC	1 cut(s)	153
MboI	GATC	2 cut(s)	141, 376
MboII	GAAGA	3 cut(s)	327, 362, 464
MhlI	GDGCHC	1 cut(s)	121
MluCI	AATT	1 cut(s)	397
MlyI	GAGTC	1 cut(s)	350
MmeI	TCCRAC	1 cut(s)	373
MspI	CCGG	1 cut(s)	317
Mva1269I	GAATGC	1 cut(s)	24
NdeII	GATC	2 cut(s)	141, 376
NheI	GCTAGC	2 cut(s)	178, 203
NlaIII	CATG	3 cut(s)	293, 302, 416
NmeAIII	GCCGAG	1 cut(s)	134
NspV	TTCGAA	1 cut(s)	16
PaeR7I	CTCGAG	1 cut(s)	114
PagI	TCATGA	3 cut(s)	289, 298, 412
PciSI	GCTCTTC	1 cut(s)	447
PctI	GAATGC	1 cut(s)	24
PfeI	GAWTC	2 cut(s)	302, 326
PleI	GAGTC	1 cut(s)	350
PpsI	GAGTC	1 cut(s)	350
Psp124BI	GAGCTC	1 cut(s)	121
Psp1406I	AACGTT	1 cut(s)	89
PspXI	VCTCGAGB	1 cut(s)	114
PsrI	GAACNNNNNNTAC	2 cut(s)	79, 111
PstI	CTGCAG	2 cut(s)	238, 272
RsaI	GTAC	1 cut(s)	409
RsaNI	GTAC	1 cut(s)	408
SacI	GAGCTC	1 cut(s)	121
SapI	GCTCTTC	1 cut(s)	447
Sau3AI	GATC	2 cut(s)	141, 376
ScaI	AGTACT	1 cut(s)	409
SchI	GAGTC	1 cut(s)	350
SduI	GDGCHC	1 cut(s)	121
SfaNI	GCATC	1 cut(s)	424
SfcI	CTRYAG	3 cut(s)	96, 234, 268
Sfr274I	CTCGAG	1 cut(s)	114
SfuI	TTCGAA	1 cut(s)	16
SlaI	CTCGAG	1 cut(s)	114
SmlI	CTYRAG	2 cut(s)	114, 321
SmoI	CTYRAG	2 cut(s)	114, 321
Sse9I	AATT	1 cut(s)	397
SsiI	CCGC	2 cut(s)	151, 201
SspMI	CTAG	5 cut(s)	179, 204, 264, 438, 449
SstI	GAGCTC	1 cut(s)	121
TaiI	ACGT	3 cut(s)	92, 129, 393
TaqI	TCGA	3 cut(s)	16, 71, 115
TasI	AATT	1 cut(s)	397
TatI	WGTACW	1 cut(s)	407
TauI	GCSGC	2 cut(s)	153, 203
TfiI	GAWTC	2 cut(s)	302, 326
TspDTI	ATGAA	4 cut(s)	306, 315, 318, 327
XhoI	CTCGAG	1 cut(s)	114
XspI	CTAG	5 cut(s)	179, 204, 264, 438, 449
ZrmI	AGTACT	1 cut(s)	409

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