Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0012153

Physical Location & Seq

Genomic Coordinates Reverse (-)

54356774 .. 54359617

Gene Structure 2844 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG275800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 732 bp

ATGTTAGAGGTAGAACGAGTTGGATATTCTCCCTCACCGGAAGAAGCCGAGGCTTTTAGCTACATGAACGACTCGTTAGGTGCAGGCAGTAGTTTAAAGAAGAAGAGCAGCAAGAACAACAAGAAGAGGTTCAGTGATGAGCAGATTCGATCGTTGGAGTCCATTTTTGAGTCCGAGTCGAGGTTGGAGCCAAGGAAGAAGCTACAGCTGGCGAAAGAGCTGGGGTTGCAACCAAGGCAGGTTGCGATATGGTTTCAGAATAAGAGAGCTCGATGGAAGTCGAAGCAGCTTGAAAGAGACTACAGCATACTCAGAGCCAACTACAATAACTTGGCTTCCCGGTTTGAAGCCCTCAAGAAAGAAAAGCAGGCCTTGGTTACTCAGTTGCAGAAGCTGAATGATAAGATGCAAAGGCCAAAAGAGGAAAGGAACAATAGCATTGATGGCGAATCGGACAATGGAGATGATGCTACTAGGTCGGAATCTGAGGGGAAGCCTAATTACCAGATGTCATTGGAAAAATCAGAACATCGGCTTCGAGTTATGTCAGATGATGATAGCAGCATAAAGGCAGAGTACGTTGGACTTGAGGAGGAACCGAACCTTGTGAACTTTGTGGAATCTGCAGATGGGTCCTTAACATCTCCTGAAGATTGGGGTAGATTGAACTCCGATGGTGGTCTTTTTGACCAATCGACTAGTGATTACCAGTGGTGGGATTTTTGGTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009605 GO:0009607 GO:0009615 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009889 GO:0009891 GO:0009893 GO:0010033 GO:0010035 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0033993 GO:0042221 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0097305 GO:0140110 GO:1901363 GO:1901700 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

243

Amino Acids

28.07

Weight (kDa)

5.21

Isoelectric Point (pI)

62.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	39 - 93	3.3e-17	Homeodomain
HALZ	PF02183	95 - 137	2.4e-17	Homeobox associated leucine zipper

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0012153)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G46680 AT2G46680 AT3G61890
fragaria_vesca	FvH4_7g17320
malus_domestica	MD00G1036300.v1.1 MD07G1156200.v1.1
prunus_persica	Prupe.2G194400_v2.0.a1
pyrus_communis	pycom01g11010 pycom07g15300
rosa_chinensis	RchiOBHm_Chr1g0360751
rosa_laevigata	RLG00000027788
rosa_multiflora	Rmu_ssc0000022.1_g000013
rosa_roxburghii	Rroxscaffold_4G00295850
rosa_rugosa	Rorug01G0281300
rosa_samantha	Rh1AG293400 Rh1BG257800 Rh1CG275800 Rh1DG287900
rosa_wichuraiana	Rw1G025950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	229
AcuI	CTGAAG	1 cut(s)	669
AfaI	GTAC	1 cut(s)	578
AfiI	CCNNNNNNNGG	2 cut(s)	180, 715
AgsI	TTSAA	3 cut(s)	293, 347, 667
AhlI	ACTAGT	1 cut(s)	698
AluBI	AGCT	7 cut(s)	60, 202, 208, 220, 269, 289, 394
AluI	AGCT	7 cut(s)	60, 202, 208, 220, 269, 289, 394
Alw21I	GWGCWC	1 cut(s)	271
Alw26I	GTCTC	1 cut(s)	291
AlwNI	CAGNNNCTG	1 cut(s)	394
AoxI	GGCC	2 cut(s)	369, 413
ApeKI	GCWGC	3 cut(s)	108, 286, 561
Asp700I	GAANNNNTTC	1 cut(s)	128
AspS9I	GGNCC	1 cut(s)	633
AsuC2I	CCSGG	1 cut(s)	340
AsuHPI	GGTGA	1 cut(s)	27
AvaII	GGWCC	1 cut(s)	633
BanII	GRGCYC	1 cut(s)	271
BarI	GAAGNNNNNNTAC	2 cut(s)	485, 517
Bbv12I	GWGCWC	1 cut(s)	271
BbvI	GCAGC	3 cut(s)	120, 298, 573
BccI	CCATC	4 cut(s)	267, 437, 623, 668
BcnI	CCSGG	1 cut(s)	340
BcoDI	GTCTC	1 cut(s)	291
BcuI	ACTAGT	1 cut(s)	698
BfaI	CTAG	2 cut(s)	474, 699
BfmI	CTRYAG	3 cut(s)	203, 301, 624
BfuAI	ACCTGC	1 cut(s)	229
BisI	GCNGC	3 cut(s)	109, 287, 562
BlsI	GCNGC	3 cut(s)	110, 288, 563
Bme1390I	CCNGG	1 cut(s)	340
Bme18I	GGWCC	1 cut(s)	633
BmgT120I	GGNCC	1 cut(s)	633
BmiI	GGNNCC	3 cut(s)	189, 597, 634
BmrFI	CCNGG	1 cut(s)	340
BmsI	GCATC	2 cut(s)	396, 457
BpuEI	CTTGAG	2 cut(s)	338, 608
BpuMI	CCSGG	1 cut(s)	340
BsaJI	CCNNGG	4 cut(s)	48, 191, 233, 372
BsaWI	WCCGGW	1 cut(s)	37
Bsc4I	CCNNNNNNNGG	2 cut(s)	180, 715
Bse1I	ACTGG	1 cut(s)	709
BseDI	CCNNGG	4 cut(s)	48, 191, 233, 372
BseLI	CCNNNNNNNGG	2 cut(s)	180, 715
BseMII	CTCAG	3 cut(s)	325, 395, 477
BseNI	ACTGG	1 cut(s)	709
BseRI	GAGGAG	1 cut(s)	605
BseXI	GCAGC	3 cut(s)	120, 298, 573
BseYI	CCCAGC	1 cut(s)	220
BsgI	GTGCAG	1 cut(s)	102
Bsh1285I	CGRYCG	1 cut(s)	152
BshFI	GGCC	2 cut(s)	371, 415
BsiEI	CGRYCG	1 cut(s)	152
BsiHKAI	GWGCWC	1 cut(s)	271
BsiSI	CCGG	2 cut(s)	38, 340
BslI	CCNNNNNNNGG	2 cut(s)	180, 715
BsmAI	GTCTC	1 cut(s)	291
BsnI	GGCC	2 cut(s)	371, 415
Bsp1286I	GDGCHC	1 cut(s)	271
Bsp143I	GATC	1 cut(s)	149
BspANI	GGCC	2 cut(s)	371, 415
BspCNI	CTCAG	3 cut(s)	324, 394, 478
BspLI	GGNNCC	3 cut(s)	189, 597, 634
BspMAI	CTGCAG	1 cut(s)	628
BspMI	ACCTGC	1 cut(s)	229
BspQI	GCTCTTC	1 cut(s)	98
BsrI	ACTGG	1 cut(s)	709
BssECI	CCNNGG	4 cut(s)	48, 191, 233, 372
BssMI	GATC	1 cut(s)	149
BssT1I	CCWWGG	3 cut(s)	191, 233, 372
Bst6I	CTCTTC	2 cut(s)	98, 119
BstC8I	GCNNGC	3 cut(s)	85, 210, 369
BstDEI	CTNAG	3 cut(s)	311, 381, 486
BstKTI	GATC	1 cut(s)	152
BstMAI	GTCTC	1 cut(s)	291
BstMBI	GATC	1 cut(s)	149
BstMCI	CGRYCG	1 cut(s)	152
BstMWI	GCNNNNNNNGC	3 cut(s)	226, 235, 444
BstSCI	CCNGG	1 cut(s)	338
BstSFI	CTRYAG	3 cut(s)	203, 301, 624
BstV1I	GCAGC	3 cut(s)	120, 298, 573
BsuRI	GGCC	2 cut(s)	371, 415
BtsIMutI	CAGTG	2 cut(s)	139, 716
BveI	ACCTGC	1 cut(s)	229
Cac8I	GCNNGC	3 cut(s)	85, 210, 369
CaiI	CAGNNNCTG	1 cut(s)	394
Cfr13I	GGNCC	1 cut(s)	633
Csp6I	GTAC	1 cut(s)	577
CviAII	CATG	1 cut(s)	64
CviQI	GTAC	1 cut(s)	577
DdeI	CTNAG	3 cut(s)	311, 381, 486
DpnI	GATC	1 cut(s)	151
DpnII	GATC	1 cut(s)	149
DraI	TTTAAA	1 cut(s)	96
Eam1104I	CTCTTC	2 cut(s)	98, 119
EarI	CTCTTC	2 cut(s)	98, 119
Ecl136II	GAGCTC	1 cut(s)	269
Eco130I	CCWWGG	3 cut(s)	191, 233, 372
Eco147I	AGGCCT	1 cut(s)	371
Eco24I	GRGCYC	1 cut(s)	271
Eco47I	GGWCC	1 cut(s)	633
Eco53kI	GAGCTC	1 cut(s)	269
Eco57I	CTGAAG	1 cut(s)	669
EcoICRI	GAGCTC	1 cut(s)	269
EcoO109I	RGGNCCY	1 cut(s)	633
EcoT14I	CCWWGG	3 cut(s)	191, 233, 372
EcoT38I	GRGCYC	1 cut(s)	271
ErhI	CCWWGG	3 cut(s)	191, 233, 372
FaeI	CATG	1 cut(s)	67
FaiI	YATR	5 cut(s)	65, 250, 308, 545, 566
FalI	AAGNNNNNCTT	2 cut(s)	356, 388
FatI	CATG	1 cut(s)	63
Fnu4HI	GCNGC	3 cut(s)	109, 287, 562
FriOI	GRGCYC	1 cut(s)	271
Fsp4HI	GCNGC	3 cut(s)	109, 287, 562
FspBI	CTAG	2 cut(s)	474, 699
GluI	GCNGC	3 cut(s)	109, 287, 562
GsaI	CCCAGC	1 cut(s)	224
HaeIII	GGCC	2 cut(s)	371, 415
HapII	CCGG	2 cut(s)	38, 340
Hin1II	CATG	1 cut(s)	67
HinfI	GANTC	8 cut(s)	71, 145, 158, 170, 176, 449, 482, 620
HpaII	CCGG	2 cut(s)	38, 340
HphI	GGTGA	1 cut(s)	27
Hpy166II	GTNNAC	1 cut(s)	610
Hpy188I	TCNGA	9 cut(s)	175, 258, 314, 454, 481, 487, 526, 550, 673
Hpy188III	TCNNGA	3 cut(s)	355, 647, 729
Hpy8I	GTNNAC	1 cut(s)	610
HpyCH4IV	ACGT	1 cut(s)	579
HpyCH4V	TGCA	5 cut(s)	83, 229, 388, 409, 626
HpyF10VI	GCNNNNNNNGC	3 cut(s)	226, 235, 444
HpyF3I	CTNAG	3 cut(s)	311, 381, 486
HpySE526I	ACGT	1 cut(s)	579
Hsp92II	CATG	1 cut(s)	67
Kzo9I	GATC	1 cut(s)	149
LguI	GCTCTTC	1 cut(s)	98
LmnI	GCTCC	1 cut(s)	187
Lsp1109I	GCAGC	3 cut(s)	120, 298, 573
LweI	GCATC	2 cut(s)	396, 457
MaeI	CTAG	2 cut(s)	474, 699
MaeII	ACGT	1 cut(s)	579
MaeIII	GTNAC	1 cut(s)	376
MalI	GATC	1 cut(s)	151
MboI	GATC	1 cut(s)	149
MboII	GAAGA	6 cut(s)	53, 112, 115, 136, 208, 662
MhlI	GDGCHC	1 cut(s)	271
MluCI	AATT	1 cut(s)	499
MlyI	GAGTC	4 cut(s)	65, 167, 179, 185
MmeI	TCCRAC	4 cut(s)	135, 165, 459, 562
MnlI	CCTC	9 cut(s)	43, 43, 120, 174, 362, 415, 481, 583, 586
MroXI	GAANNNNTTC	1 cut(s)	128
MseI	TTAA	2 cut(s)	95, 638
MspA1I	CMGCKG	1 cut(s)	208
MspI	CCGG	2 cut(s)	38, 340
MspR9I	CCNGG	1 cut(s)	340
MwoI	GCNNNNNNNGC	3 cut(s)	226, 235, 444
NciI	CCSGG	1 cut(s)	340
NdeII	GATC	1 cut(s)	149
NlaIII	CATG	1 cut(s)	67
NlaIV	GGNNCC	3 cut(s)	189, 597, 634
NmeAIII	GCCGAG	1 cut(s)	73
PceI	AGGCCT	1 cut(s)	371
PciSI	GCTCTTC	1 cut(s)	98
PdmI	GAANNNNTTC	1 cut(s)	128
PfeI	GAWTC	4 cut(s)	145, 449, 482, 620
PkrI	GCNGC	3 cut(s)	110, 288, 563
Ple19I	CGATCG	1 cut(s)	152
PleI	GAGTC	4 cut(s)	65, 166, 178, 184
PpsI	GAGTC	4 cut(s)	65, 166, 178, 184
PpuMI	RGGWCCY	1 cut(s)	633
Psp124BI	GAGCTC	1 cut(s)	271
Psp5II	RGGWCCY	1 cut(s)	633
PspFI	CCCAGC	1 cut(s)	220
PspN4I	GGNNCC	3 cut(s)	189, 597, 634
PspPI	GGNCC	1 cut(s)	633
PspPPI	RGGWCCY	1 cut(s)	633
PstI	CTGCAG	1 cut(s)	628
PstNI	CAGNNNCTG	1 cut(s)	394
PvuI	CGATCG	1 cut(s)	152
PvuII	CAGCTG	1 cut(s)	208
RsaI	GTAC	1 cut(s)	578
RsaNI	GTAC	1 cut(s)	577
SacI	GAGCTC	1 cut(s)	271
SapI	GCTCTTC	1 cut(s)	98
SaqAI	TTAA	2 cut(s)	95, 638
SatI	GCNGC	3 cut(s)	109, 287, 562
Sau3AI	GATC	1 cut(s)	149
Sau96I	GGNCC	1 cut(s)	633
SchI	GAGTC	4 cut(s)	65, 167, 179, 185
ScrFI	CCNGG	1 cut(s)	340
SduI	GDGCHC	1 cut(s)	271
SfaNI	GCATC	2 cut(s)	396, 457
SfcI	CTRYAG	3 cut(s)	203, 301, 624
SinI	GGWCC	1 cut(s)	633
SmlI	CTYRAG	2 cut(s)	353, 587
SmoI	CTYRAG	2 cut(s)	353, 587
SpeI	ACTAGT	1 cut(s)	698
Sse9I	AATT	1 cut(s)	499
SseBI	AGGCCT	1 cut(s)	371
SspMI	CTAG	2 cut(s)	474, 699
SstI	GAGCTC	1 cut(s)	271
StuI	AGGCCT	1 cut(s)	371
StyD4I	CCNGG	1 cut(s)	338
StyI	CCWWGG	3 cut(s)	191, 233, 372
TaiI	ACGT	1 cut(s)	582
TaqI	TCGA	6 cut(s)	148, 179, 271, 281, 538, 695
TasI	AATT	1 cut(s)	499
TfiI	GAWTC	4 cut(s)	145, 449, 482, 620
Tru1I	TTAA	2 cut(s)	95, 638
Tru9I	TTAA	2 cut(s)	95, 638
TscAI	CASTG	2 cut(s)	139, 716
TseI	GCWGC	3 cut(s)	108, 286, 561
TspDTI	ATGAA	1 cut(s)	80
TspRI	CASTG	2 cut(s)	139, 716
VpaK11BI	GGWCC	1 cut(s)	633
XmnI	GAANNNNTTC	1 cut(s)	128
XspI	CTAG	2 cut(s)	474, 699

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