Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001827

Physical Location & Seq

Genomic Coordinates Forward (+)

64753017 .. 64754941

Gene Structure 1925 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00272780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGGCCGGCGGTGGGAGGGTCTATAGTAGTAGCGGTGGTGCCTCGTTTTTGCTTCAGAATCAGAGAGGTTCTTGCGCTCTCGAGCCTCTCGATTCTCTCTTCCTTTCTGGGTCCTCTAATGCTTCCTCTACTTCTCCTTTTCTCGGTTCATCCATGATGAGTTTCGAAGGTGTTCGGGGAGGAAATGGATTGAAGAGGTCCGTGTTCCAGCAATACGAGCACGAAGACAATTGTGATGAGGAATTCGATGAGTACTTTCATCAACCTGGAAAGAAGAGGCGGCTAACTGCTGATCAAGTCCAGTTCCTCGAGAAAAGCTTTGACTTGGAAAACAAGCTTGAACCAGAAAGGAAGATCCTGCTTGCAAAAGACCTTGGCTTGCAGCCTCGGCAGGTTGCGATTTGGTTCCAAAACCGCCGCGCAAGGTGGAAGACAAAGCAGCTGGAGAAGGACTATGATGTTTTGCAAGCCAACTATAATAGTCTCAAGGCGGATTGCGATAGCCTTTGTAAAGAGAATGATAAGCTGAAAGCTGAGGTTGTTCAGCTATCGGACAGGCTGCGGCTGAAAGATGAAGAGAGGGCAAACTCAGAACAATCGGATACGAATAAATCAAATCAAGAACCACAGCAGATGCCAATTGCTGAATCGGTCTCCTCCGAATGTGAAGTATCCAAAATCTCGGTTGTGGCATGTAAGGAAGATCTTAGCTCAGTCAAGAGCGATTTATTTGACTCGGATAGCTCACATTACACCGATGGGGTTCATTCTTCTCTCTTAGAGCGTGGTGATTCTTCATATATTTTTGAACCCGATCAGTCTGATCTTTCCCAAGATGAAGAAGATAACTTGAGCAAAACCCTATTGCCAACATACATCTTTCCGAAGCTTGAAGATGTCGATTACACAGACCCTCCTGCAAATTCATGTAATTTCGGGTTCCCAGTGGAAGATCATGCCTTTTGGTCCTGGTCTTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006417 GO:0006950 GO:0006970 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009651 GO:0009653 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009965 GO:0010016 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0034248 GO:0034249 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046983 GO:0048366 GO:0048367 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

326

Amino Acids

36.82

Weight (kDa)

4.67

Isoelectric Point (pI)

61.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	91 - 144	8.1e-17	Homeodomain
HALZ	PF02183	146 - 187	1.7e-16	Homeobox associated leucine zipper

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: OG0001827)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G27045 AT1G27045 AT1G27045 AT1G27045 AT1G27045
fragaria_vesca	FvH4_4g32060 FvH4_5g15520 FvH4_5g15520 FvH4_5g15520
malus_domestica	MD06G1032300.v1.1 MD06G1187600.v1.1 MD13G1030700.v1.1 MD13G1079500.v1.1 MD14G1194000.v1.1 MD16G1079400.v1.1
prunus_persica	Prupe.1G267300_v2.0.a1 Prupe.1G267300_v2.0.a1 Prupe.1G267300_v2.0.a1 Prupe.5G185900_v2.0.a1
pyrus_communis	pycom06g16680 pycom13g06920 pycom14g16140 pycom16g06860
rosa_chinensis	RchiOBHm_Chr4g0440751 RchiOBHm_Chr7g0180571
rosa_laevigata	RLG00000005254 RLG00000006157
rosa_multiflora	Rmu_sc0000424.1_g000003 Rmu_sc0005690.1_g000017 Rmu_sc0008018.1_g000014
rosa_roxburghii	Rroxscaffold_3G00272780 Rroxscaffold_5G00381510
rosa_rugosa	Rorug04G0327600 Rorug06G0433800
rosa_samantha	Rh4AG379400 Rh4BG392200 Rh4BG392300 Rh4CG406900 Rh4CG407000 Rh4DG386100 Rh7AG035200 Rh7BG035100 Rh7CG036700 Rh7DG035400
rosa_wichuraiana	Rw4G032630 Rw4G032660 Rw7G002890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	382
AccB1I	GGYRCC	1 cut(s)	38
AccII	CGCG	1 cut(s)	420
AciI	CCGC	7 cut(s)	9, 33, 280, 415, 418, 491, 562
AclWI	GGATC	1 cut(s)	349
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	2 cut(s)	242, 922
AcuI	CTGAAG	1 cut(s)	38
AfaI	GTAC	1 cut(s)	254
AfiI	CCNNNNNNNGG	2 cut(s)	12, 143
AgsI	TTSAA	4 cut(s)	193, 341, 809, 893
AjnI	CCWGG	2 cut(s)	265, 968
AluBI	AGCT	9 cut(s)	318, 337, 442, 526, 533, 547, 711, 744, 889
AluI	AGCT	9 cut(s)	318, 337, 442, 526, 533, 547, 711, 744, 889
Alw21I	GWGCWC	1 cut(s)	222
Alw26I	GTCTC	2 cut(s)	488, 658
AlwI	GGATC	1 cut(s)	349
Ama87I	CYCGRG	2 cut(s)	80, 308
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	3 cut(s)	382, 439, 559
ApoI	RAATTY	2 cut(s)	242, 922
Asp700I	GAANNNNTTC	1 cut(s)	171
AspLEI	GCGC	2 cut(s)	77, 422
AspS9I	GGNCC	3 cut(s)	111, 198, 966
AsuHPI	GGTGA	1 cut(s)	800
AsuII	TTCGAA	1 cut(s)	165
AvaI	CYCGRG	2 cut(s)	80, 308
AvaII	GGWCC	3 cut(s)	111, 198, 966
BanI	GGYRCC	1 cut(s)	38
BbsI	GAAGAC	2 cut(s)	231, 437
Bbv12I	GWGCWC	1 cut(s)	222
BbvCI	CCTCAGC	1 cut(s)	534
BbvI	GCAGC	3 cut(s)	394, 451, 546
BccI	CCATC	1 cut(s)	752
BciT130I	CCWGG	2 cut(s)	267, 970
BciVI	GTATCC	2 cut(s)	595, 682
BclI	TGATCA	1 cut(s)	292
BcoDI	GTCTC	2 cut(s)	488, 658
BfaI	CTAG	1 cut(s)	979
BfmI	CTRYAG	1 cut(s)	22
BfuAI	ACCTGC	1 cut(s)	382
BfuI	GTATCC	2 cut(s)	595, 682
BglII	AGATCT	1 cut(s)	703
BisI	GCNGC	6 cut(s)	281, 383, 418, 440, 560, 563
BlsI	GCNGC	6 cut(s)	282, 384, 419, 441, 561, 564
BmcAI	AGTACT	1 cut(s)	254
Bme1390I	CCNGG	2 cut(s)	267, 970
Bme18I	GGWCC	3 cut(s)	111, 198, 966
BmeT110I	CYCGRG	2 cut(s)	80, 308
BmgT120I	GGNCC	3 cut(s)	111, 198, 966
BmiI	GGNNCC	4 cut(s)	40, 112, 407, 941
BmrFI	CCNGG	2 cut(s)	267, 970
BmrI	ACTGGG	1 cut(s)	938
BmsI	GCATC	1 cut(s)	624
BmuI	ACTGGG	1 cut(s)	938
BpiI	GAAGAC	2 cut(s)	231, 437
BpmI	CTGGAG	1 cut(s)	464
Bpu10I	CCTNAGC	1 cut(s)	534
Bpu14I	TTCGAA	1 cut(s)	165
BpuEI	CTTGAG	2 cut(s)	470, 871
BsaI	GGTCTC	1 cut(s)	658
BsaJI	CCNNGG	2 cut(s)	373, 386
BsaXI	ACNNNNNCTCC	2 cut(s)	898, 928
Bsc4I	CCNNNNNNNGG	2 cut(s)	12, 143
Bse118I	RCCGGY	1 cut(s)	5
Bse1I	ACTGG	2 cut(s)	301, 944
BseBI	CCWGG	2 cut(s)	267, 970
BseDI	CCNNGG	2 cut(s)	373, 386
BseGI	GGATG	1 cut(s)	149
BseLI	CCNNNNNNNGG	2 cut(s)	12, 143
BseMII	CTCAG	3 cut(s)	525, 603, 726
BseNI	ACTGG	2 cut(s)	301, 944
BseRI	GAGGAG	1 cut(s)	646
BseXI	GCAGC	3 cut(s)	394, 451, 546
Bsh1236I	CGCG	1 cut(s)	420
BshFI	GGCC	1 cut(s)	5
BshNI	GGYRCC	1 cut(s)	38
BsiHKAI	GWGCWC	1 cut(s)	222
BsiHKCI	CYCGRG	2 cut(s)	80, 308
BsiSI	CCGG	1 cut(s)	6
BslI	CCNNNNNNNGG	2 cut(s)	12, 143
BsmAI	GTCTC	2 cut(s)	488, 658
BsnI	GGCC	1 cut(s)	5
Bso31I	GGTCTC	1 cut(s)	658
BsoBI	CYCGRG	2 cut(s)	80, 308
Bsp119I	TTCGAA	1 cut(s)	165
Bsp1286I	GDGCHC	1 cut(s)	222
Bsp143I	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
BspACI	CCGC	7 cut(s)	9, 33, 280, 415, 418, 491, 562
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	3 cut(s)	526, 602, 725
BspFNI	CGCG	1 cut(s)	420
BspLI	GGNNCC	4 cut(s)	40, 112, 407, 941
BspMI	ACCTGC	1 cut(s)	382
BspPI	GGATC	1 cut(s)	349
BspT104I	TTCGAA	1 cut(s)	165
BspT107I	GGYRCC	1 cut(s)	38
BspTNI	GGTCTC	1 cut(s)	658
BsrFI	RCCGGY	1 cut(s)	5
BsrI	ACTGG	2 cut(s)	301, 944
BssAI	RCCGGY	1 cut(s)	5
BssECI	CCNNGG	2 cut(s)	373, 386
BssMI	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
BssT1I	CCWWGG	1 cut(s)	373
Bst2UI	CCWGG	2 cut(s)	267, 970
Bst6I	CTCTTC	4 cut(s)	104, 188, 269, 570
BstBI	TTCGAA	1 cut(s)	165
BstC8I	GCNNGC	4 cut(s)	7, 363, 380, 468
BstDEI	CTNAG	5 cut(s)	534, 589, 707, 712, 778
BstF5I	GGATG	1 cut(s)	149
BstFNI	CGCG	1 cut(s)	420
BstHHI	GCGC	2 cut(s)	77, 422
BstKTI	GATC	6 cut(s)	295, 357, 706, 817, 826, 955
BstMAI	GTCTC	2 cut(s)	488, 658
BstMBI	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
BstMWI	GCNNNNNNNGC	2 cut(s)	217, 388
BstNI	CCWGG	2 cut(s)	267, 970
BstNSI	RCATGY	1 cut(s)	696
BstSCI	CCNGG	2 cut(s)	265, 968
BstSFI	CTRYAG	1 cut(s)	22
BstUI	CGCG	1 cut(s)	420
BstV1I	GCAGC	3 cut(s)	394, 451, 546
BstV2I	GAAGAC	2 cut(s)	231, 437
BstX2I	RGATCY	2 cut(s)	354, 703
BstYI	RGATCY	2 cut(s)	354, 703
BsuI	GTATCC	2 cut(s)	595, 682
BsuRI	GGCC	1 cut(s)	5
BtsCI	GGATG	1 cut(s)	149
BtsIMutI	CAGTG	1 cut(s)	951
BveI	ACCTGC	1 cut(s)	382
Cac8I	GCNNGC	4 cut(s)	7, 363, 380, 468
CfoI	GCGC	2 cut(s)	77, 422
Cfr10I	RCCGGY	1 cut(s)	5
Cfr13I	GGNCC	3 cut(s)	111, 198, 966
Csp6I	GTAC	1 cut(s)	253
CviAII	CATG	4 cut(s)	154, 693, 927, 956
CviQI	GTAC	1 cut(s)	253
DdeI	CTNAG	5 cut(s)	534, 589, 707, 712, 778
DpnI	GATC	6 cut(s)	294, 356, 705, 816, 825, 954
DpnII	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	4 cut(s)	104, 188, 269, 570
EarI	CTCTTC	4 cut(s)	104, 188, 269, 570
EciI	GGCGGA	1 cut(s)	506
Eco130I	CCWWGG	1 cut(s)	373
Eco31I	GGTCTC	1 cut(s)	658
Eco47I	GGWCC	3 cut(s)	111, 198, 966
Eco57I	CTGAAG	1 cut(s)	38
Eco88I	CYCGRG	2 cut(s)	80, 308
EcoO109I	RGGNCCY	1 cut(s)	111
EcoRI	GAATTC	1 cut(s)	242
EcoRII	CCWGG	2 cut(s)	265, 968
EcoT14I	CCWWGG	1 cut(s)	373
ErhI	CCWWGG	1 cut(s)	373
FaeI	CATG	4 cut(s)	157, 696, 930, 959
FatI	CATG	4 cut(s)	153, 692, 926, 955
FbaI	TGATCA	1 cut(s)	292
Fnu4HI	GCNGC	6 cut(s)	281, 383, 418, 440, 560, 563
FokI	GGATG	1 cut(s)	136
Fsp4HI	GCNGC	6 cut(s)	281, 383, 418, 440, 560, 563
FspBI	CTAG	1 cut(s)	979
GlaI	GCGC	2 cut(s)	76, 421
GluI	GCNGC	6 cut(s)	281, 383, 418, 440, 560, 563
GsuI	CTGGAG	1 cut(s)	464
HaeIII	GGCC	1 cut(s)	5
HapII	CCGG	1 cut(s)	6
HhaI	GCGC	2 cut(s)	77, 422
Hin1II	CATG	4 cut(s)	157, 696, 930, 959
Hin6I	GCGC	2 cut(s)	75, 420
HinP1I	GCGC	2 cut(s)	75, 420
HindIII	AAGCTT	3 cut(s)	316, 335, 887
HinfI	GANTC	5 cut(s)	58, 92, 647, 734, 791
HpaII	CCGG	1 cut(s)	6
HphI	GGTGA	1 cut(s)	800
Hpy188I	TCNGA	9 cut(s)	57, 63, 553, 592, 601, 661, 739, 823, 885
Hpy188III	TCNNGA	5 cut(s)	80, 89, 310, 620, 718
HpyAV	CCTTC	2 cut(s)	161, 442
HpyCH4V	TGCA	4 cut(s)	365, 382, 466, 920
HpyF10VI	GCNNNNNNNGC	2 cut(s)	217, 388
HpyF3I	CTNAG	5 cut(s)	534, 589, 707, 712, 778
Hsp92II	CATG	4 cut(s)	157, 696, 930, 959
HspAI	GCGC	2 cut(s)	75, 420
KroI	GCCGGC	1 cut(s)	5
KroNI	GCCGGC	1 cut(s)	7
Ksp22I	TGATCA	1 cut(s)	292
Kzo9I	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
Lsp1109I	GCAGC	3 cut(s)	394, 451, 546
LweI	GCATC	1 cut(s)	624
MaeI	CTAG	1 cut(s)	979
MalI	GATC	6 cut(s)	294, 356, 705, 816, 825, 954
MboI	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
MfeI	CAATTG	2 cut(s)	229, 639
MflI	RGATCY	2 cut(s)	354, 703
MhlI	GDGCHC	1 cut(s)	222
MluCI	AATT	5 cut(s)	229, 242, 639, 922, 931
MlyI	GAGTC	1 cut(s)	728
MroNI	GCCGGC	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	171
MspA1I	CMGCKG	1 cut(s)	442
MspI	CCGG	1 cut(s)	6
MspR9I	CCNGG	2 cut(s)	267, 970
MunI	CAATTG	2 cut(s)	229, 639
MvaI	CCWGG	2 cut(s)	267, 970
MvnI	CGCG	1 cut(s)	420
MwoI	GCNNNNNNNGC	2 cut(s)	217, 388
NaeI	GCCGGC	1 cut(s)	7
NdeII	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
NgoMIV	GCCGGC	1 cut(s)	5
NlaIII	CATG	4 cut(s)	157, 696, 930, 959
NlaIV	GGNNCC	4 cut(s)	40, 112, 407, 941
NmeAIII	GCCGAG	1 cut(s)	367
NspI	RCATGY	1 cut(s)	696
NspV	TTCGAA	1 cut(s)	165
PaeR7I	CTCGAG	2 cut(s)	80, 308
PcsI	WCGNNNNNNNCGW	1 cut(s)	87
PdiI	GCCGGC	1 cut(s)	7
PdmI	GAANNNNTTC	1 cut(s)	171
PfeI	GAWTC	4 cut(s)	58, 92, 647, 791
PkrI	GCNGC	6 cut(s)	282, 384, 419, 441, 561, 564
PleI	GAGTC	1 cut(s)	728
PpsI	GAGTC	1 cut(s)	728
PpuMI	RGGWCCY	1 cut(s)	111
Psp5II	RGGWCCY	1 cut(s)	111
Psp6I	CCWGG	2 cut(s)	265, 968
PspGI	CCWGG	2 cut(s)	265, 968
PspN4I	GGNNCC	4 cut(s)	40, 112, 407, 941
PspPI	GGNCC	3 cut(s)	111, 198, 966
PspPPI	RGGWCCY	1 cut(s)	111
PsuI	RGATCY	2 cut(s)	354, 703
PvuII	CAGCTG	1 cut(s)	442
RsaI	GTAC	1 cut(s)	254
RsaNI	GTAC	1 cut(s)	253
SatI	GCNGC	6 cut(s)	281, 383, 418, 440, 560, 563
Sau3AI	GATC	6 cut(s)	292, 354, 703, 814, 823, 952
Sau96I	GGNCC	3 cut(s)	111, 198, 966
ScaI	AGTACT	1 cut(s)	254
SchI	GAGTC	1 cut(s)	728
ScrFI	CCNGG	2 cut(s)	267, 970
SduI	GDGCHC	1 cut(s)	222
SfaNI	GCATC	1 cut(s)	624
SfcI	CTRYAG	1 cut(s)	22
Sfr274I	CTCGAG	2 cut(s)	80, 308
SfuI	TTCGAA	1 cut(s)	165
SinI	GGWCC	3 cut(s)	111, 198, 966
SlaI	CTCGAG	2 cut(s)	80, 308
SmlI	CTYRAG	4 cut(s)	80, 308, 485, 850
SmoI	CTYRAG	4 cut(s)	80, 308, 485, 850
Sse9I	AATT	5 cut(s)	229, 242, 639, 922, 931
SsiI	CCGC	7 cut(s)	9, 33, 280, 415, 418, 491, 562
SspMI	CTAG	1 cut(s)	979
StyD4I	CCNGG	2 cut(s)	265, 968
StyI	CCWWGG	1 cut(s)	373
TaqI	TCGA	6 cut(s)	81, 90, 165, 246, 309, 900
TaqII	GACCGA	1 cut(s)	640
TasI	AATT	5 cut(s)	229, 242, 639, 922, 931
TatI	WGTACW	1 cut(s)	252
TauI	GCSGC	3 cut(s)	283, 420, 565
TfiI	GAWTC	4 cut(s)	58, 92, 647, 791
TscAI	CASTG	1 cut(s)	951
TseI	GCWGC	3 cut(s)	382, 439, 559
TspDTI	ATGAA	7 cut(s)	138, 248, 588, 755, 786, 852, 915
TspGWI	ACGGA	1 cut(s)	190
TspRI	CASTG	1 cut(s)	951
VpaK11BI	GGWCC	3 cut(s)	111, 198, 966
XapI	RAATTY	2 cut(s)	242, 922
XceI	RCATGY	1 cut(s)	696
XhoI	CTCGAG	2 cut(s)	80, 308
XmnI	GAANNNNTTC	1 cut(s)	171
XspI	CTAG	1 cut(s)	979
ZrmI	AGTACT	1 cut(s)	254

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