Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0001827

Physical Location & Seq

Genomic Coordinates Forward (+)

61461673 .. 61463867

Gene Structure 2195 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00381510.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGCTGTTTTTCAACACGAAAGGCCTCCTTGCTCTTCTGACGTTCTCGAGTCTCTTTGGATTCCCACTTCATCTTCATCTTTTCATGGTTCAAATTCAATGGTCAATTTTGAAAATGTTAGCGGCGGGGGACTCCATGGACAAGTCACTCTTCCAACCTATTGATAAAGAAGAAAATGGGGATGACGATTACGAAGGTAGCCTGCTGCATCAACCCGGAAAGAAAAGACGACTTACAGTTGATCAAGTTCAGTTTCTAGAGAAGAATTTTGAGCTAGAAAACAAGCTTGAACCAGATAGGAAAGTCCAACTTGCCAAAGAACTTAGCTTGGAGCCTCGCCAAGTTGCAATTTGGTTTCAAAACCGGCGGGCTCGGTTTAAGACCAAGCAGCTCGAAAAGGACTATGACTCATTGAGAGCTAGCTATGACAAGCTCAAGGCTGATCATGATAAGCTACTAAAGCAGAATGGAAATTTGAAGAATGAGATTGATTCCCTCAAGGACAAGTTGCTTTTGAGAGAGAAAGGAAAGGAAAATTTGGAGTCAAATGATGATATCAATTCGCCAAAAATGGATATCCAAGATGCCATTCCAAATAATACTGCTGATGTTTATGTGCCGATTATGGTATGCAAGCAAGAAGATGCAAGTTCTGCCAAAAGTGATGTGTTTGACTCAGATAGTCCACATTGCACTGAAAACCATTCATTGTTGTTAGAGCCCACTACAACTGCTGATTCCTCTCATGGATTTGAACCTGCTGATCACTCAGATTTCTCACAAGATAATGAAGATGACAACAGCCTCACCAGAAGCCTTTTGCATTTGCCCCCACCTTGCTTTTTAAAACTCGAAGATATCTGCTATGATGATCCCCCTGCAATTTCTAGTAATTTCGGATTAATCCCAGTAGAAGATCAGCATCCTTTTGGTTTTTGGCCCTACTGA

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

315

Amino Acids

36.07

Weight (kDa)

4.9

Isoelectric Point (pI)

40.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	74 - 127	8.4e-16	Homeodomain
HALZ	PF02183	129 - 170	3e-15	Homeobox associated leucine zipper

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: 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)	766
AciI	CCGC	3 cut(s)	122, 125, 367
AclWI	GGATC	1 cut(s)	866
AcsI	RAATTY	4 cut(s)	93, 265, 472, 535
AgsI	TTSAA	8 cut(s)	13, 92, 98, 112, 290, 359, 478, 755
AjuI	GAANNNNNNNTTGG	2 cut(s)	573, 605
AluBI	AGCT	8 cut(s)	274, 286, 327, 391, 419, 423, 433, 454
AluI	AGCT	8 cut(s)	274, 286, 327, 391, 419, 423, 433, 454
Alw26I	GTCTC	1 cut(s)	56
AlwI	GGATC	1 cut(s)	866
Ama87I	CYCGRG	1 cut(s)	46
AoxI	GGCC	2 cut(s)	22, 938
ApeKI	GCWGC	2 cut(s)	205, 388
ApoI	RAATTY	4 cut(s)	93, 265, 472, 535
AseI	ATTAAT	1 cut(s)	902
AspS9I	GGNCC	1 cut(s)	939
AsuC2I	CCSGG	1 cut(s)	216
AsuHPI	GGTGA	1 cut(s)	799
AsuNHI	GCTAGC	1 cut(s)	419
AvaI	CYCGRG	1 cut(s)	46
BanII	GRGCYC	2 cut(s)	373, 723
BbvI	GCAGC	2 cut(s)	192, 400
BclI	TGATCA	3 cut(s)	241, 442, 763
BcnI	CCSGG	1 cut(s)	216
BcoDI	GTCTC	1 cut(s)	56
BfaI	CTAG	4 cut(s)	257, 275, 420, 888
BfuAI	ACCTGC	1 cut(s)	766
BisI	GCNGC	3 cut(s)	123, 206, 389
BlsI	GCNGC	3 cut(s)	124, 207, 390
Bme1390I	CCNGG	1 cut(s)	216
BmeT110I	CYCGRG	1 cut(s)	46
BmgT120I	GGNCC	1 cut(s)	939
BmiI	GGNNCC	1 cut(s)	333
BmrFI	CCNGG	1 cut(s)	216
BmrI	ACTGGG	1 cut(s)	902
BmsI	GCATC	4 cut(s)	217, 574, 634, 931
BmtI	GCTAGC	1 cut(s)	423
BmuI	ACTGGG	1 cut(s)	902
BpuEI	CTTGAG	2 cut(s)	419, 482
BpuMI	CCSGG	1 cut(s)	216
BsaBI	GATNNNNATC	1 cut(s)	921
BsaJI	CCNNGG	1 cut(s)	135
Bse118I	RCCGGY	1 cut(s)	363
Bse1I	ACTGG	1 cut(s)	908
Bse3DI	GCAATG	1 cut(s)	688
Bse8I	GATNNNNATC	1 cut(s)	921
BseDI	CCNNGG	1 cut(s)	135
BseGI	GGATG	2 cut(s)	187, 922
BseJI	GATNNNNATC	1 cut(s)	921
BseMI	GCAATG	1 cut(s)	688
BseMII	CTCAG	2 cut(s)	690, 783
BseNI	ACTGG	1 cut(s)	908
BseXI	GCAGC	2 cut(s)	192, 400
BshFI	GGCC	2 cut(s)	24, 940
BsiHKCI	CYCGRG	1 cut(s)	46
BsiSI	CCGG	2 cut(s)	216, 364
BslFI	GGGAC	1 cut(s)	143
BsmAI	GTCTC	1 cut(s)	56
BsmFI	GGGAC	1 cut(s)	143
BsnI	GGCC	2 cut(s)	24, 940
BsoBI	CYCGRG	1 cut(s)	46
Bsp1286I	GDGCHC	2 cut(s)	373, 723
Bsp143I	GATC	5 cut(s)	241, 442, 763, 871, 916
Bsp19I	CCATGG	1 cut(s)	135
BspACI	CCGC	3 cut(s)	122, 125, 367
BspANI	GGCC	2 cut(s)	24, 940
BspCNI	CTCAG	2 cut(s)	689, 782
BspHI	TCATGA	1 cut(s)	445
BspLI	GGNNCC	1 cut(s)	333
BspMI	ACCTGC	1 cut(s)	766
BspOI	GCTAGC	1 cut(s)	423
BspPI	GGATC	1 cut(s)	866
BspQI	GCTCTTC	1 cut(s)	39
BsrDI	GCAATG	1 cut(s)	688
BsrFI	RCCGGY	1 cut(s)	363
BsrI	ACTGG	1 cut(s)	908
BssAI	RCCGGY	1 cut(s)	363
BssECI	CCNNGG	1 cut(s)	135
BssMI	GATC	5 cut(s)	241, 442, 763, 871, 916
BssT1I	CCWWGG	1 cut(s)	135
Bst4CI	ACNGT	1 cut(s)	238
Bst6I	CTCTTC	2 cut(s)	39, 155
BstAPI	GCANNNNNTGC	1 cut(s)	653
BstC8I	GCNNGC	4 cut(s)	203, 369, 421, 635
BstDEI	CTNAG	3 cut(s)	323, 676, 769
BstDSI	CCRYGG	1 cut(s)	135
BstF5I	GGATG	2 cut(s)	187, 922
BstKTI	GATC	5 cut(s)	244, 445, 766, 874, 919
BstMAI	GTCTC	1 cut(s)	56
BstMBI	GATC	5 cut(s)	241, 442, 763, 871, 916
BstMWI	GCNNNNNNNGC	2 cut(s)	460, 653
BstSCI	CCNGG	1 cut(s)	214
BstV1I	GCAGC	2 cut(s)	192, 400
BsuRI	GGCC	2 cut(s)	24, 940
BtgI	CCRYGG	1 cut(s)	135
BtsCI	GGATG	2 cut(s)	187, 922
BtsIMutI	CAGTG	1 cut(s)	693
BveI	ACCTGC	1 cut(s)	766
Cac8I	GCNNGC	4 cut(s)	203, 369, 421, 635
CciI	TCATGA	1 cut(s)	445
Cfr10I	RCCGGY	1 cut(s)	363
Cfr13I	GGNCC	1 cut(s)	939
CviAII	CATG	4 cut(s)	85, 136, 446, 746
DdeI	CTNAG	3 cut(s)	323, 676, 769
DpnI	GATC	5 cut(s)	243, 444, 765, 873, 918
DpnII	GATC	5 cut(s)	241, 442, 763, 871, 916
DraI	TTTAAA	1 cut(s)	846
Eam1104I	CTCTTC	2 cut(s)	39, 155
EarI	CTCTTC	2 cut(s)	39, 155
Eco130I	CCWWGG	1 cut(s)	135
Eco147I	AGGCCT	1 cut(s)	24
Eco24I	GRGCYC	2 cut(s)	373, 723
Eco32I	GATATC	3 cut(s)	556, 577, 859
Eco88I	CYCGRG	1 cut(s)	46
EcoRV	GATATC	3 cut(s)	556, 577, 859
EcoT14I	CCWWGG	1 cut(s)	135
EcoT38I	GRGCYC	2 cut(s)	373, 723
ErhI	CCWWGG	1 cut(s)	135
FaeI	CATG	4 cut(s)	88, 139, 449, 749
FalI	AAGNNNNNCTT	6 cut(s)	12, 44, 134, 166, 294, 326
FaqI	GGGAC	1 cut(s)	143
FatI	CATG	4 cut(s)	84, 135, 445, 745
FauI	CCCGC	2 cut(s)	118, 360
FbaI	TGATCA	3 cut(s)	241, 442, 763
Fnu4HI	GCNGC	3 cut(s)	123, 206, 389
FokI	GGATG	2 cut(s)	194, 909
FriOI	GRGCYC	2 cut(s)	373, 723
Fsp4HI	GCNGC	3 cut(s)	123, 206, 389
FspBI	CTAG	4 cut(s)	257, 275, 420, 888
GluI	GCNGC	3 cut(s)	123, 206, 389
HaeIII	GGCC	2 cut(s)	24, 940
HapII	CCGG	2 cut(s)	216, 364
Hin1II	CATG	4 cut(s)	88, 139, 449, 749
HindIII	AAGCTT	1 cut(s)	284
HinfI	GANTC	8 cut(s)	49, 60, 131, 407, 491, 542, 674, 737
HpaII	CCGG	2 cut(s)	216, 364
HphI	GGTGA	1 cut(s)	799
Hpy166II	GTNNAC	1 cut(s)	686
Hpy188I	TCNGA	4 cut(s)	39, 679, 772, 899
Hpy188III	TCNNGA	3 cut(s)	46, 257, 446
Hpy8I	GTNNAC	1 cut(s)	686
HpyAV	CCTTC	1 cut(s)	188
HpyCH4III	ACNGT	1 cut(s)	238
HpyCH4IV	ACGT	1 cut(s)	41
HpyCH4V	TGCA	7 cut(s)	208, 347, 633, 647, 693, 823, 881
HpyF10VI	GCNNNNNNNGC	2 cut(s)	460, 653
HpyF3I	CTNAG	3 cut(s)	323, 676, 769
HpySE526I	ACGT	1 cut(s)	41
Hsp92II	CATG	4 cut(s)	88, 139, 449, 749
Ksp22I	TGATCA	3 cut(s)	241, 442, 763
Kzo9I	GATC	5 cut(s)	241, 442, 763, 871, 916
LguI	GCTCTTC	1 cut(s)	39
LmnI	GCTCC	1 cut(s)	331
LpnPI	CCDG	8 cut(s)	215, 229, 306, 377, 771, 823, 891, 921
Lsp1109I	GCAGC	2 cut(s)	192, 400
LweI	GCATC	4 cut(s)	217, 574, 634, 931
MaeI	CTAG	4 cut(s)	257, 275, 420, 888
MaeII	ACGT	1 cut(s)	41
MaeIII	GTNAC	1 cut(s)	144
MalI	GATC	5 cut(s)	243, 444, 765, 873, 918
MboI	GATC	5 cut(s)	241, 442, 763, 871, 916
MhlI	GDGCHC	2 cut(s)	373, 723
MluCI	AATT	9 cut(s)	93, 105, 265, 348, 472, 535, 559, 882, 892
MlyI	GAGTC	5 cut(s)	58, 125, 401, 551, 668
MmeI	TCCRAC	2 cut(s)	178, 331
MnlI	CCTC	5 cut(s)	35, 345, 506, 751, 815
MseI	TTAA	3 cut(s)	378, 845, 902
MspI	CCGG	2 cut(s)	216, 364
MspR9I	CCNGG	1 cut(s)	216
MwoI	GCNNNNNNNGC	2 cut(s)	460, 653
NciI	CCSGG	1 cut(s)	216
NcoI	CCATGG	1 cut(s)	135
NdeII	GATC	5 cut(s)	241, 442, 763, 871, 916
NheI	GCTAGC	1 cut(s)	419
NlaIII	CATG	4 cut(s)	88, 139, 449, 749
NlaIV	GGNNCC	1 cut(s)	333
NmuCI	GTSAC	1 cut(s)	144
PaeR7I	CTCGAG	1 cut(s)	46
PagI	TCATGA	1 cut(s)	445
PceI	AGGCCT	1 cut(s)	24
PciSI	GCTCTTC	1 cut(s)	39
PfeI	GAWTC	3 cut(s)	60, 491, 737
PkrI	GCNGC	3 cut(s)	124, 207, 390
PleI	GAGTC	5 cut(s)	57, 125, 401, 550, 668
PpsI	GAGTC	5 cut(s)	57, 125, 401, 550, 668
PshBI	ATTAAT	1 cut(s)	902
PspN4I	GGNNCC	1 cut(s)	333
PspPI	GGNCC	1 cut(s)	939
SapI	GCTCTTC	1 cut(s)	39
SaqAI	TTAA	3 cut(s)	378, 845, 902
SatI	GCNGC	3 cut(s)	123, 206, 389
Sau3AI	GATC	5 cut(s)	241, 442, 763, 871, 916
Sau96I	GGNCC	1 cut(s)	939
SchI	GAGTC	5 cut(s)	58, 125, 401, 551, 668
ScrFI	CCNGG	1 cut(s)	216
SduI	GDGCHC	2 cut(s)	373, 723
SfaNI	GCATC	4 cut(s)	217, 574, 634, 931
Sfr274I	CTCGAG	1 cut(s)	46
SlaI	CTCGAG	1 cut(s)	46
SmlI	CTYRAG	3 cut(s)	46, 434, 497
SmoI	CTYRAG	3 cut(s)	46, 434, 497
Sse9I	AATT	9 cut(s)	93, 105, 265, 348, 472, 535, 559, 882, 892
SseBI	AGGCCT	1 cut(s)	24
SsiI	CCGC	3 cut(s)	122, 125, 367
SspMI	CTAG	4 cut(s)	257, 275, 420, 888
StuI	AGGCCT	1 cut(s)	24
StyD4I	CCNGG	1 cut(s)	214
StyI	CCWWGG	1 cut(s)	135
TaaI	ACNGT	1 cut(s)	238
TaiI	ACGT	1 cut(s)	44
TaqI	TCGA	3 cut(s)	47, 393, 852
TasI	AATT	9 cut(s)	93, 105, 265, 348, 472, 535, 559, 882, 892
TauI	GCSGC	1 cut(s)	125
TfiI	GAWTC	3 cut(s)	60, 491, 737
Tru1I	TTAA	3 cut(s)	378, 845, 902
Tru9I	TTAA	3 cut(s)	378, 845, 902
TscAI	CASTG	1 cut(s)	700
TseFI	GTSAC	1 cut(s)	144
TseI	GCWGC	2 cut(s)	205, 388
Tsp45I	GTSAC	1 cut(s)	144
TspDTI	ATGAA	5 cut(s)	59, 65, 73, 696, 804
TspRI	CASTG	1 cut(s)	700
VspI	ATTAAT	1 cut(s)	902
XapI	RAATTY	4 cut(s)	93, 265, 472, 535
XbaI	TCTAGA	1 cut(s)	256
XhoI	CTCGAG	1 cut(s)	46
XspI	CTAG	4 cut(s)	257, 275, 420, 888

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