Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0003573

Physical Location & Seq

Genomic Coordinates Forward (+)

70155537 .. 70158741

Gene Structure 3205 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG502500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGGGTTTCGATGATATTACCGCTGAGCTTGGCCTCAGCCTAGGCTGCCATGACAAGCCAGCCAATCACGATCATGATCATCACCAAAACCAGAAGAAACCACACTTGAAATACGACCAATTACTGCCGTCTGATCTTACTCTAGGCCCATCAGATGAGGCAGAACCAAGAGGGTCTAATTCCTCTTCTCCGAGCGGAGCCGTTTCATCGTTTTCTAACTCGTCTAGTTTCAAGAGGGTAGACAGAGACTTATTGTGTTCTGGTGAAGAGGTAGAGAGAGTAAGCGAGGAACTATATGAAGATCAGGCAGGAAGTCCCAGAAAGAAACTCAGACTTACAAAAGAACAATCTGCCACATTAGAAGACAGCTTCAAACAACACACCACTCTCAATCCTAAACAAAAAATAGAGCTGGCCAGAAATCTAAACCTACGGCCGCGACAGGTAGAAGTGTGGTTCCAGAACAGGAGGGCTAGGACTAAGTTGAAGCAAACTGAAGCGGATTGCGAGCTGTTAAAGAAATGCTGCGAGACTCTCAAAGAAGAGAACAGGAGGCTACACAAGGAGCTGCAAGAGCTCCAGTTAATGAAACAAACACCAACGGCGCCGTTTTACATGCAGTTTCCGACGGCTACTCTCACCGTGTGCCCTTCCTGCAGTGAGAGAATTGGCAACGGTACTAGTACCCCTATTGCCGGTGATCATCATCATGGAATATCGAAGCCTCCCCTTTTCAACCCCTTTACTCACCCATCTACAGCTTGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003700 GO:0006355 GO:0006950 GO:0007154 GO:0007165 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009719 GO:0009725 GO:0009735 GO:0009737 GO:0009738 GO:0009755 GO:0009889 GO:0009987 GO:0010033 GO:0010035 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0033993 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0140110 GO:1901700 GO:1901701 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ HD-ZIP_N Homeobox

Protein Analysis

255

Amino Acids

28.73

Weight (kDa)

6.86

Isoelectric Point (pI)

54.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	107 - 161	2.5e-16	Homeodomain
HALZ	PF02183	163 - 197	2.5e-08	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003573)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G22800 AT4G37790
fragaria_vesca	FvH4_1g18530 FvH4_2g32410
malus_domestica	MD02G1192800.v1.1 MD08G1075400.v1.1 MD08G1075500.v1.1 MD15G1062900.v1.1 MD15G1302900.v1.1
prunus_persica	Prupe.1G416800_v2.0.a1 Prupe.6G213800_v2.0.a1
pyrus_communis	pycom02g15660 pycom08g06230 pycom15g05950 pycom15g26620
rosa_chinensis	RchiOBHm_Chr2g0109191 RchiOBHm_Chr6g0310291
rosa_laevigata	RLG00000010494 RLG00000017725
rosa_multiflora	Rmu_sc0002348.1_g000019 Rmu_sc0002348.1_g000020 Rmu_sc0009436.1_g000008
rosa_roxburghii	Rroxscaffold_2G00134400 Rroxscaffold_7G00158690
rosa_rugosa	Rorug02G0158300 Rorug06G0378500
rosa_samantha	Rh2AG209900 Rh2BG220300 Rh2CG212300 Rh2DG216100 Rh6AG492900 Rh6BG502500 Rh6CG507500 Rh6DG493600
rosa_wichuraiana	Rw6G042890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	604
AccBSI	CCGCTC	1 cut(s)	195
AccI	GTMKAC	1 cut(s)	240
AccII	CGCG	1 cut(s)	439
AciI	CCGC	4 cut(s)	21, 195, 437, 500
AcoI	YGGCCR	2 cut(s)	414, 434
AcuI	CTGAAG	1 cut(s)	516
AcyI	GRCGYC	1 cut(s)	605
AdeI	CACNNNGTG	1 cut(s)	645
AfaI	GTAC	2 cut(s)	679, 685
AfiI	CCNNNNNNNGG	1 cut(s)	695
AgsI	TTSAA	5 cut(s)	109, 232, 373, 487, 736
AhlI	ACTAGT	1 cut(s)	680
AluBI	AGCT	7 cut(s)	28, 369, 412, 511, 568, 577, 761
AluI	AGCT	7 cut(s)	28, 369, 412, 511, 568, 577, 761
Alw21I	GWGCWC	1 cut(s)	579
Alw26I	GTCTC	2 cut(s)	240, 524
AoxI	GGCC	4 cut(s)	31, 145, 414, 434
ApeKI	GCWGC	3 cut(s)	45, 525, 568
AspA2I	CCTAGG	1 cut(s)	40
AspLEI	GCGC	1 cut(s)	607
AspS9I	GGNCC	1 cut(s)	146
AsuHPI	GGTGA	5 cut(s)	74, 275, 631, 710, 740
AvrII	CCTAGG	1 cut(s)	40
BaeGI	GKGCMC	1 cut(s)	650
BalI	TGGCCA	1 cut(s)	416
BanI	GGYRCC	1 cut(s)	604
BanII	GRGCYC	1 cut(s)	579
BbsI	GAAGAC	1 cut(s)	369
Bbv12I	GWGCWC	1 cut(s)	579
BbvCI	CCTCAGC	1 cut(s)	35
BbvI	GCAGC	3 cut(s)	32, 512, 555
BccI	CCATC	2 cut(s)	157, 760
BceAI	ACGGC	6 cut(s)	112, 185, 449, 592, 618, 645
BclI	TGATCA	2 cut(s)	76, 700
BcoDI	GTCTC	2 cut(s)	240, 524
BcuI	ACTAGT	1 cut(s)	680
BfaI	CTAG	6 cut(s)	41, 143, 225, 474, 681, 766
BfmI	CTRYAG	2 cut(s)	655, 756
BfoI	RGCGCY	1 cut(s)	608
BisI	GCNGC	4 cut(s)	46, 437, 526, 569
BlnI	CCTAGG	1 cut(s)	40
BlpI	GCTNAGC	1 cut(s)	24
BlsI	GCNGC	4 cut(s)	47, 438, 527, 570
BmgT120I	GGNCC	1 cut(s)	146
BmiI	GGNNCC	3 cut(s)	199, 458, 606
BpiI	GAAGAC	1 cut(s)	369
BpmI	CTGGAG	1 cut(s)	563
Bpu10I	CCTNAGC	1 cut(s)	35
Bpu1102I	GCTNAGC	1 cut(s)	24
BsaBI	GATNNNNATC	2 cut(s)	75, 705
BsaHI	GRCGYC	1 cut(s)	605
BsaJI	CCNNGG	1 cut(s)	40
Bsc4I	CCNNNNNNNGG	1 cut(s)	695
Bse118I	RCCGGY	1 cut(s)	695
Bse1I	ACTGG	1 cut(s)	580
Bse8I	GATNNNNATC	2 cut(s)	75, 705
BseDI	CCNNGG	1 cut(s)	40
BseJI	GATNNNNATC	2 cut(s)	75, 705
BseLI	CCNNNNNNNGG	1 cut(s)	695
BseMII	CTCAG	3 cut(s)	15, 49, 343
BseNI	ACTGG	1 cut(s)	580
BseSI	GKGCMC	1 cut(s)	650
BseX3I	CGGCCG	1 cut(s)	434
BseXI	GCAGC	3 cut(s)	32, 512, 555
Bsh1236I	CGCG	1 cut(s)	439
Bsh1285I	CGRYCG	1 cut(s)	437
BshFI	GGCC	4 cut(s)	33, 147, 416, 436
BshNI	GGYRCC	1 cut(s)	604
BsiEI	CGRYCG	1 cut(s)	437
BsiHKAI	GWGCWC	1 cut(s)	579
BsiSI	CCGG	1 cut(s)	696
BslFI	GGGAC	1 cut(s)	300
BslI	CCNNNNNNNGG	1 cut(s)	695
BsmAI	GTCTC	2 cut(s)	240, 524
BsmFI	GGGAC	1 cut(s)	300
BsnI	GGCC	4 cut(s)	33, 147, 416, 436
Bsp1286I	GDGCHC	2 cut(s)	579, 650
Bsp143I	GATC	5 cut(s)	70, 76, 133, 301, 700
Bsp1720I	GCTNAGC	1 cut(s)	24
BspACI	CCGC	4 cut(s)	21, 195, 437, 500
BspANI	GGCC	4 cut(s)	33, 147, 416, 436
BspCNI	CTCAG	3 cut(s)	16, 48, 342
BspFNI	CGCG	1 cut(s)	439
BspHI	TCATGA	1 cut(s)	73
BspLI	GGNNCC	3 cut(s)	199, 458, 606
BspMAI	CTGCAG	1 cut(s)	659
BspT107I	GGYRCC	1 cut(s)	604
BsrBI	CCGCTC	1 cut(s)	195
BsrFI	RCCGGY	1 cut(s)	695
BsrI	ACTGG	1 cut(s)	580
BssAI	RCCGGY	1 cut(s)	695
BssECI	CCNNGG	1 cut(s)	40
BssMI	GATC	5 cut(s)	70, 76, 133, 301, 700
BssNI	GRCGYC	1 cut(s)	605
BssT1I	CCWWGG	1 cut(s)	40
Bst4CI	ACNGT	2 cut(s)	643, 677
Bst6I	CTCTTC	3 cut(s)	190, 261, 537
BstACI	GRCGYC	1 cut(s)	605
BstC8I	GCNNGC	4 cut(s)	60, 414, 509, 763
BstDEI	CTNAG	4 cut(s)	24, 35, 329, 480
BstFNI	CGCG	1 cut(s)	439
BstH2I	RGCGCY	1 cut(s)	608
BstHHI	GCGC	1 cut(s)	607
BstKTI	GATC	5 cut(s)	73, 79, 136, 304, 703
BstMAI	GTCTC	2 cut(s)	240, 524
BstMBI	GATC	5 cut(s)	70, 76, 133, 301, 700
BstMCI	CGRYCG	1 cut(s)	437
BstMWI	GCNNNNNNNGC	3 cut(s)	45, 574, 654
BstNSI	RCATGY	1 cut(s)	619
BstSFI	CTRYAG	2 cut(s)	655, 756
BstSLI	GKGCMC	1 cut(s)	650
BstUI	CGCG	1 cut(s)	439
BstV1I	GCAGC	3 cut(s)	32, 512, 555
BstV2I	GAAGAC	1 cut(s)	369
BstZI	CGGCCG	1 cut(s)	434
BsuRI	GGCC	4 cut(s)	33, 147, 416, 436
BtsI	GCAGTG	1 cut(s)	664
BtsIMutI	CAGTG	1 cut(s)	664
Cac8I	GCNNGC	4 cut(s)	60, 414, 509, 763
CciI	TCATGA	1 cut(s)	73
CfoI	GCGC	1 cut(s)	607
Cfr10I	RCCGGY	1 cut(s)	695
Cfr13I	GGNCC	1 cut(s)	146
Csp6I	GTAC	2 cut(s)	678, 684
CviAII	CATG	4 cut(s)	50, 74, 616, 710
CviQI	GTAC	2 cut(s)	678, 684
DdeI	CTNAG	4 cut(s)	24, 35, 329, 480
DinI	GGCGCC	1 cut(s)	606
DpnI	GATC	5 cut(s)	72, 78, 135, 303, 702
DpnII	GATC	5 cut(s)	70, 76, 133, 301, 700
DraIII	CACNNNGTG	1 cut(s)	645
EaeI	YGGCCR	2 cut(s)	414, 434
EagI	CGGCCG	1 cut(s)	434
Eam1104I	CTCTTC	3 cut(s)	190, 261, 537
EarI	CTCTTC	3 cut(s)	190, 261, 537
Ecl136II	GAGCTC	1 cut(s)	577
EclXI	CGGCCG	1 cut(s)	434
Eco130I	CCWWGG	1 cut(s)	40
Eco24I	GRGCYC	1 cut(s)	579
Eco52I	CGGCCG	1 cut(s)	434
Eco53kI	GAGCTC	1 cut(s)	577
Eco57I	CTGAAG	1 cut(s)	516
EcoICRI	GAGCTC	1 cut(s)	577
EcoT14I	CCWWGG	1 cut(s)	40
EcoT38I	GRGCYC	1 cut(s)	579
EgeI	GGCGCC	1 cut(s)	606
EheI	GGCGCC	1 cut(s)	606
ErhI	CCWWGG	1 cut(s)	40
FaeI	CATG	4 cut(s)	53, 77, 619, 713
FaiI	YATR	6 cut(s)	51, 75, 295, 297, 617, 711
FaqI	GGGAC	1 cut(s)	300
FatI	CATG	4 cut(s)	49, 73, 615, 709
FbaI	TGATCA	2 cut(s)	76, 700
FblI	GTMKAC	1 cut(s)	240
Fnu4HI	GCNGC	4 cut(s)	46, 437, 526, 569
FriOI	GRGCYC	1 cut(s)	579
Fsp4HI	GCNGC	4 cut(s)	46, 437, 526, 569
FspBI	CTAG	6 cut(s)	41, 143, 225, 474, 681, 766
GlaI	GCGC	1 cut(s)	606
GluI	GCNGC	4 cut(s)	46, 437, 526, 569
GsuI	CTGGAG	1 cut(s)	563
HaeII	RGCGCY	1 cut(s)	608
HaeIII	GGCC	4 cut(s)	33, 147, 416, 436
HapII	CCGG	1 cut(s)	696
HhaI	GCGC	1 cut(s)	607
Hin1I	GRCGYC	1 cut(s)	605
Hin1II	CATG	4 cut(s)	53, 77, 619, 713
Hin6I	GCGC	1 cut(s)	605
HinP1I	GCGC	1 cut(s)	605
HinfI	GANTC	1 cut(s)	532
HpaII	CCGG	1 cut(s)	696
HphI	GGTGA	5 cut(s)	74, 275, 631, 710, 740
Hpy166II	GTNNAC	1 cut(s)	241
Hpy188I	TCNGA	5 cut(s)	133, 154, 192, 332, 627
Hpy188III	TCNNGA	4 cut(s)	68, 74, 232, 460
Hpy8I	GTNNAC	1 cut(s)	241
Hpy99I	CGWCG	1 cut(s)	631
HpyAV	CCTTC	1 cut(s)	660
HpyCH4III	ACNGT	2 cut(s)	643, 677
HpyCH4V	TGCA	3 cut(s)	571, 619, 657
HpyF10VI	GCNNNNNNNGC	3 cut(s)	45, 574, 654
HpyF3I	CTNAG	4 cut(s)	24, 35, 329, 480
Hsp92I	GRCGYC	1 cut(s)	605
Hsp92II	CATG	4 cut(s)	53, 77, 619, 713
HspAI	GCGC	1 cut(s)	605
KasI	GGCGCC	1 cut(s)	604
Ksp22I	TGATCA	2 cut(s)	76, 700
Kzo9I	GATC	5 cut(s)	70, 76, 133, 301, 700
LmnI	GCTCC	3 cut(s)	197, 565, 582
Lsp1109I	GCAGC	3 cut(s)	32, 512, 555
MaeI	CTAG	6 cut(s)	41, 143, 225, 474, 681, 766
MalI	GATC	5 cut(s)	72, 78, 135, 303, 702
MbiI	CCGCTC	1 cut(s)	195
MboI	GATC	5 cut(s)	70, 76, 133, 301, 700
MboII	GAAGA	6 cut(s)	106, 177, 278, 311, 374, 554
MhlI	GDGCHC	2 cut(s)	579, 650
MlsI	TGGCCA	1 cut(s)	416
MluCI	AATT	3 cut(s)	119, 178, 666
MluNI	TGGCCA	1 cut(s)	416
Mly113I	GGCGCC	1 cut(s)	605
MlyI	GAGTC	1 cut(s)	526
MmeI	TCCRAC	1 cut(s)	650
Mox20I	TGGCCA	1 cut(s)	416
MscI	TGGCCA	1 cut(s)	416
MseI	TTAA	2 cut(s)	515, 584
MslI	CAYNNNNRTG	2 cut(s)	72, 708
Msp20I	TGGCCA	1 cut(s)	416
MspA1I	CMGCKG	1 cut(s)	23
MspI	CCGG	1 cut(s)	696
MvnI	CGCG	1 cut(s)	439
MwoI	GCNNNNNNNGC	3 cut(s)	45, 574, 654
NarI	GGCGCC	1 cut(s)	605
NdeII	GATC	5 cut(s)	70, 76, 133, 301, 700
NlaIII	CATG	4 cut(s)	53, 77, 619, 713
NlaIV	GGNNCC	3 cut(s)	199, 458, 606
NspI	RCATGY	1 cut(s)	619
PagI	TCATGA	1 cut(s)	73
PkrI	GCNGC	4 cut(s)	47, 438, 527, 570
PleI	GAGTC	1 cut(s)	526
PluTI	GGCGCC	1 cut(s)	608
PpsI	GAGTC	1 cut(s)	526
Psp124BI	GAGCTC	1 cut(s)	579
PspN4I	GGNNCC	3 cut(s)	199, 458, 606
PspPI	GGNCC	1 cut(s)	146
PstI	CTGCAG	1 cut(s)	659
RsaI	GTAC	2 cut(s)	679, 685
RsaNI	GTAC	2 cut(s)	678, 684
RseI	CAYNNNNRTG	2 cut(s)	72, 708
SacI	GAGCTC	1 cut(s)	579
SaqAI	TTAA	2 cut(s)	515, 584
SatI	GCNGC	4 cut(s)	46, 437, 526, 569
Sau3AI	GATC	5 cut(s)	70, 76, 133, 301, 700
Sau96I	GGNCC	1 cut(s)	146
SchI	GAGTC	1 cut(s)	526
SduI	GDGCHC	2 cut(s)	579, 650
SfcI	CTRYAG	2 cut(s)	655, 756
SfoI	GGCGCC	1 cut(s)	606
SmiMI	CAYNNNNRTG	2 cut(s)	72, 708
SpeI	ACTAGT	1 cut(s)	680
Sse9I	AATT	3 cut(s)	119, 178, 666
SsiI	CCGC	4 cut(s)	21, 195, 437, 500
SspDI	GGCGCC	1 cut(s)	604
SspMI	CTAG	6 cut(s)	41, 143, 225, 474, 681, 766
SstI	GAGCTC	1 cut(s)	579
StyI	CCWWGG	1 cut(s)	40
TaaI	ACNGT	2 cut(s)	643, 677
TaqI	TCGA	2 cut(s)	9, 719
TasI	AATT	3 cut(s)	119, 178, 666
TauI	GCSGC	1 cut(s)	439
Tru1I	TTAA	2 cut(s)	515, 584
Tru9I	TTAA	2 cut(s)	515, 584
TscAI	CASTG	1 cut(s)	664
TseI	GCWGC	3 cut(s)	45, 525, 568
TspDTI	ATGAA	3 cut(s)	195, 312, 602
TspRI	CASTG	1 cut(s)	664
XceI	RCATGY	1 cut(s)	619
XmaJI	CCTAGG	1 cut(s)	40
XmiI	GTMKAC	1 cut(s)	240
XspI	CTAG	6 cut(s)	41, 143, 225, 474, 681, 766

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