Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0012829

Physical Location & Seq

Genomic Coordinates Forward (+)

68260712 .. 68263763

Gene Structure 3052 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG375500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGGTAACACTCTCTCTTGCTTTCTTGCCTTCTTTCTTTCTCTCTCATTGTCACCTCTACTTAAATGGGTTTGTTATGTGTGTGAATTGTTTAGGTGTTGCATCGTTCCTAGGGAAGCGGTCAATGTCATTTTCCGGGATTGAGTTGGGCACTGAAGAGGGTCATGGGGAAGATGATTTATCTGATGATGGGTCACAGGCCGGAGGGGAGAAGAAGAGGAGGCTAAACATGGAGCAAGTGAAGACACTTGAGAAGAACTTTGAGTTGGGGAACAAGCTTGAGCCTGAGAGGAAAATGCAGCTGGCTAGAGCTCTTGGTCTGCAGCCAAGACAGATTGCCATTTGGTTTCAGAACAGAAGAGCAAGGTGGAAGACAAAGCAGTTGGAGAAAGACTATGATATTCTCAAGAGACAGTTTGATGCTATCAAAGCTGACAATGAATCCCTCCAAGCTCAAAACCAAAAACTTCATGCAGAGATACAGGCACTAAAAAATAGAGAACCAGCAGAATCTATCAACCTGAATATAAAAGAGACAGAGGGTTCTTGCAGCAATAGAAGTGAAAACAACTCTGCAGAAATCAAGTTGGACATTTCAAGAACTCCTCCAGCTATTGACAGCCCTCTATCCTCTCATCAAAATCCAATTATTACAAGCAGATCCCTCTTTCCTACCTCTGCTGCTGCTACTATAAGGCCTTCTGGAATACAACAACTCTTTCATCAAAACCCATCATCAAGGCCTGAGCTACTCCAATGCTCTCAGAAGATTGACCACATAGTCAAAGAAGAAAGCTTGAGCAACATGTTCTGTGGCATTGATGATCAGTCTGGGTTTTGGCCATGGTTGGAACAACACCAATTCAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009719 GO:0009725 GO:0009739 GO:0009743 GO:0009744 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009965 GO:0010016 GO:0010033 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0022622 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0033993 GO:0034285 GO:0042221 GO:0043565 GO:0048316 GO:0048364 GO:0048366 GO:0048367 GO:0048598 GO:0048608 GO:0048731 GO:0048825 GO:0048826 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080022 GO:0080090 GO:0090698 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1901700 GO:1903506 GO:1905392 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

289

Amino Acids

32.7

Weight (kDa)

6.46

Isoelectric Point (pI)

61.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	71 - 124	1e-15	Homeodomain
HALZ	PF02183	126 - 167	3.4e-18	Homeobox associated leucine zipper

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0012829)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G69780
fragaria_vesca	FvH4_4g31640
malus_domestica	MD13G1074800.v1.1 MD16G1076000.v1.1
prunus_persica	Prupe.1G271400_v2.0.a1 Prupe.1G271400_v2.0.a1
pyrus_communis	pycom13g06660 pycom16g06590
rosa_chinensis	RchiOBHm_Chr4g0440141
rosa_laevigata	RLG00000006202
rosa_multiflora	Rmu_sc0001685.1_g000019
rosa_roxburghii	Rroxscaffold_5G00381070
rosa_rugosa	Rorug04G0324700
rosa_samantha	Rh4AG375500 Rh4BG387900 Rh4CG402500 Rh4DG382100
rosa_wichuraiana	Rw4G032130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	779
AciI	CCGC	1 cut(s)	118
AclWI	GGATC	1 cut(s)	654
AcoI	YGGCCR	1 cut(s)	839
AcuI	CTGAAG	1 cut(s)	174
AflIII	ACRYGT	1 cut(s)	804
AgsI	TTSAA	2 cut(s)	597, 865
AjuI	GAANNNNNNNTTGG	2 cut(s)	248, 280
AluBI	AGCT	8 cut(s)	277, 301, 311, 431, 452, 611, 748, 795
AluI	AGCT	8 cut(s)	277, 301, 311, 431, 452, 611, 748, 795
Alw21I	GWGCWC	1 cut(s)	313
Alw26I	GTCTC	2 cut(s)	403, 527
AlwI	GGATC	1 cut(s)	654
AoxI	GGCC	4 cut(s)	198, 695, 740, 839
ApeKI	GCWGC	5 cut(s)	298, 322, 549, 680, 683
AspA2I	CCTAGG	1 cut(s)	109
AsuC2I	CCSGG	1 cut(s)	136
AsuHPI	GGTGA	1 cut(s)	44
AvrII	CCTAGG	1 cut(s)	109
BaeGI	GKGCMC	1 cut(s)	152
BalI	TGGCCA	1 cut(s)	841
BanII	GRGCYC	1 cut(s)	313
BbsI	GAAGAC	2 cut(s)	248, 377
Bbv12I	GWGCWC	1 cut(s)	313
BbvI	GCAGC	5 cut(s)	310, 334, 561, 667, 670
BccI	CCATC	2 cut(s)	182, 739
BclI	TGATCA	1 cut(s)	823
BcnI	CCSGG	1 cut(s)	136
BcoDI	GTCTC	2 cut(s)	403, 527
BfaI	CTAG	2 cut(s)	110, 306
BfmI	CTRYAG	2 cut(s)	320, 573
BisI	GCNGC	5 cut(s)	299, 323, 550, 681, 684
BlnI	CCTAGG	1 cut(s)	109
BlsI	GCNGC	5 cut(s)	300, 324, 551, 682, 685
Bme1390I	CCNGG	1 cut(s)	136
BmrFI	CCNGG	1 cut(s)	136
BmsI	GCATC	2 cut(s)	110, 409
BpiI	GAAGAC	2 cut(s)	248, 377
BpmI	CTGGAG	1 cut(s)	591
Bpu10I	CCTNAGC	1 cut(s)	744
BpuEI	CTTGAG	4 cut(s)	269, 299, 389, 817
BpuMI	CCSGG	1 cut(s)	136
BsaJI	CCNNGG	2 cut(s)	109, 842
BseDI	CCNNGG	2 cut(s)	109, 842
BseMII	CTCAG	3 cut(s)	276, 735, 776
BseRI	GAGGAG	2 cut(s)	232, 594
BseSI	GKGCMC	1 cut(s)	152
BseXI	GCAGC	5 cut(s)	310, 334, 561, 667, 670
BshFI	GGCC	4 cut(s)	200, 697, 742, 841
BsiHKAI	GWGCWC	1 cut(s)	313
BsiSI	CCGG	2 cut(s)	135, 201
BsmAI	GTCTC	2 cut(s)	403, 527
BsnI	GGCC	4 cut(s)	200, 697, 742, 841
Bsp1286I	GDGCHC	2 cut(s)	152, 313
Bsp143I	GATC	2 cut(s)	659, 823
Bsp19I	CCATGG	1 cut(s)	842
BspACI	CCGC	1 cut(s)	118
BspANI	GGCC	4 cut(s)	200, 697, 742, 841
BspCNI	CTCAG	3 cut(s)	277, 736, 775
BspMAI	CTGCAG	2 cut(s)	324, 577
BspPI	GGATC	1 cut(s)	654
BspQI	GCTCTTC	1 cut(s)	352
BssECI	CCNNGG	2 cut(s)	109, 842
BssMI	GATC	2 cut(s)	659, 823
BssT1I	CCWWGG	2 cut(s)	109, 842
Bst4CI	ACNGT	1 cut(s)	414
Bst6I	CTCTTC	3 cut(s)	150, 209, 352
BstC8I	GCNNGC	1 cut(s)	303
BstDEI	CTNAG	3 cut(s)	285, 744, 762
BstDSI	CCRYGG	1 cut(s)	842
BstKTI	GATC	2 cut(s)	662, 826
BstMAI	GTCTC	2 cut(s)	403, 527
BstMBI	GATC	2 cut(s)	659, 823
BstMWI	GCNNNNNNNGC	1 cut(s)	428
BstNSI	RCATGY	1 cut(s)	808
BstSCI	CCNGG	1 cut(s)	134
BstSFI	CTRYAG	2 cut(s)	320, 573
BstSLI	GKGCMC	1 cut(s)	152
BstV1I	GCAGC	5 cut(s)	310, 334, 561, 667, 670
BstV2I	GAAGAC	2 cut(s)	248, 377
BstX2I	RGATCY	1 cut(s)	659
BstYI	RGATCY	1 cut(s)	659
BsuRI	GGCC	4 cut(s)	200, 697, 742, 841
BtgI	CCRYGG	1 cut(s)	842
BtsIMutI	CAGTG	1 cut(s)	150
Cac8I	GCNNGC	1 cut(s)	303
CviAII	CATG	5 cut(s)	164, 229, 470, 805, 843
DdeI	CTNAG	3 cut(s)	285, 744, 762
DpnI	GATC	2 cut(s)	661, 825
DpnII	GATC	2 cut(s)	659, 823
DrdI	GACNNNNNNGTC	1 cut(s)	779
DseDI	GACNNNNNNGTC	1 cut(s)	779
EaeI	YGGCCR	1 cut(s)	839
Eam1104I	CTCTTC	3 cut(s)	150, 209, 352
EarI	CTCTTC	3 cut(s)	150, 209, 352
Ecl136II	GAGCTC	1 cut(s)	311
Eco130I	CCWWGG	2 cut(s)	109, 842
Eco147I	AGGCCT	2 cut(s)	697, 742
Eco24I	GRGCYC	1 cut(s)	313
Eco53kI	GAGCTC	1 cut(s)	311
Eco57I	CTGAAG	1 cut(s)	174
EcoICRI	GAGCTC	1 cut(s)	311
EcoT14I	CCWWGG	2 cut(s)	109, 842
EcoT38I	GRGCYC	1 cut(s)	313
ErhI	CCWWGG	2 cut(s)	109, 842
FaeI	CATG	5 cut(s)	167, 232, 473, 808, 846
FatI	CATG	5 cut(s)	163, 228, 469, 804, 842
FbaI	TGATCA	1 cut(s)	823
Fnu4HI	GCNGC	5 cut(s)	299, 323, 550, 681, 684
FriOI	GRGCYC	1 cut(s)	313
Fsp4HI	GCNGC	5 cut(s)	299, 323, 550, 681, 684
FspBI	CTAG	2 cut(s)	110, 306
GluI	GCNGC	5 cut(s)	299, 323, 550, 681, 684
GsuI	CTGGAG	1 cut(s)	591
HaeIII	GGCC	4 cut(s)	200, 697, 742, 841
HapII	CCGG	2 cut(s)	135, 201
Hin1II	CATG	5 cut(s)	167, 232, 473, 808, 846
HindIII	AAGCTT	2 cut(s)	275, 793
HinfI	GANTC	2 cut(s)	440, 509
HpaII	CCGG	2 cut(s)	135, 201
HphI	GGTGA	1 cut(s)	44
Hpy188I	TCNGA	3 cut(s)	184, 351, 765
Hpy188III	TCNNGA	3 cut(s)	406, 597, 702
HpyAV	CCTTC	2 cut(s)	39, 708
HpyCH4III	ACNGT	1 cut(s)	414
HpyCH4V	TGCA	6 cut(s)	101, 298, 322, 473, 549, 575
HpyF10VI	GCNNNNNNNGC	1 cut(s)	428
HpyF3I	CTNAG	3 cut(s)	285, 744, 762
Hsp92II	CATG	5 cut(s)	167, 232, 473, 808, 846
Ksp22I	TGATCA	1 cut(s)	823
Kzo9I	GATC	2 cut(s)	659, 823
LguI	GCTCTTC	1 cut(s)	352
LmnI	GCTCC	1 cut(s)	232
Lsp1109I	GCAGC	5 cut(s)	310, 334, 561, 667, 670
LweI	GCATC	2 cut(s)	110, 409
MaeI	CTAG	2 cut(s)	110, 306
MaeIII	GTNAC	3 cut(s)	4, 50, 192
MalI	GATC	2 cut(s)	661, 825
MboI	GATC	2 cut(s)	659, 823
MfeI	CAATTG	1 cut(s)	865
MflI	RGATCY	1 cut(s)	659
MhlI	GDGCHC	2 cut(s)	152, 313
MlsI	TGGCCA	1 cut(s)	841
MluCI	AATT	4 cut(s)	85, 645, 860, 865
MluNI	TGGCCA	1 cut(s)	841
MmeI	TCCRAC	3 cut(s)	363, 567, 828
Mox20I	TGGCCA	1 cut(s)	841
MscI	TGGCCA	1 cut(s)	841
MseI	TTAA	1 cut(s)	62
Msp20I	TGGCCA	1 cut(s)	841
MspA1I	CMGCKG	1 cut(s)	301
MspI	CCGG	2 cut(s)	135, 201
MspR9I	CCNGG	1 cut(s)	136
MunI	CAATTG	1 cut(s)	865
MwoI	GCNNNNNNNGC	1 cut(s)	428
NciI	CCSGG	1 cut(s)	136
NcoI	CCATGG	1 cut(s)	842
NdeII	GATC	2 cut(s)	659, 823
NlaIII	CATG	5 cut(s)	167, 232, 473, 808, 846
NmuCI	GTSAC	2 cut(s)	50, 192
NspI	RCATGY	1 cut(s)	808
PceI	AGGCCT	2 cut(s)	697, 742
PciI	ACATGT	1 cut(s)	804
PciSI	GCTCTTC	1 cut(s)	352
PfeI	GAWTC	2 cut(s)	440, 509
PfoI	TCCNGGA	1 cut(s)	134
PkrI	GCNGC	5 cut(s)	300, 324, 551, 682, 685
PscI	ACATGT	1 cut(s)	804
Psp124BI	GAGCTC	1 cut(s)	313
PstI	CTGCAG	2 cut(s)	324, 577
PsuI	RGATCY	1 cut(s)	659
PvuII	CAGCTG	1 cut(s)	301
SacI	GAGCTC	1 cut(s)	313
SapI	GCTCTTC	1 cut(s)	352
SaqAI	TTAA	1 cut(s)	62
SatI	GCNGC	5 cut(s)	299, 323, 550, 681, 684
Sau3AI	GATC	2 cut(s)	659, 823
ScrFI	CCNGG	1 cut(s)	136
SduI	GDGCHC	2 cut(s)	152, 313
SfaNI	GCATC	2 cut(s)	110, 409
SfcI	CTRYAG	2 cut(s)	320, 573
SmlI	CTYRAG	4 cut(s)	248, 278, 404, 796
SmoI	CTYRAG	4 cut(s)	248, 278, 404, 796
Sse9I	AATT	4 cut(s)	85, 645, 860, 865
SseBI	AGGCCT	2 cut(s)	697, 742
SsiI	CCGC	1 cut(s)	118
SspMI	CTAG	2 cut(s)	110, 306
SstI	GAGCTC	1 cut(s)	313
StuI	AGGCCT	2 cut(s)	697, 742
StyD4I	CCNGG	1 cut(s)	134
StyI	CCWWGG	2 cut(s)	109, 842
TaaI	ACNGT	1 cut(s)	414
TasI	AATT	4 cut(s)	85, 645, 860, 865
TfiI	GAWTC	2 cut(s)	440, 509
Tru1I	TTAA	1 cut(s)	62
Tru9I	TTAA	1 cut(s)	62
TscAI	CASTG	1 cut(s)	157
TseFI	GTSAC	2 cut(s)	50, 192
TseI	GCWGC	5 cut(s)	298, 322, 549, 680, 683
Tsp45I	GTSAC	2 cut(s)	50, 192
TspDTI	ATGAA	3 cut(s)	453, 458, 710
TspRI	CASTG	1 cut(s)	157
XceI	RCATGY	1 cut(s)	808
XmaJI	CCTAGG	1 cut(s)	109
XspI	CTAG	2 cut(s)	110, 306

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