Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0013963

Physical Location & Seq

Genomic Coordinates Forward (+)

38423897 .. 38425408

Gene Structure 1512 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG202800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGGTGACAAAAATGATGAGTTGGGGTTGAGTTTAGGTCTGGGGTTGGGTTATGGAGCCAAACCGTCTTCTTCTTCTTCTTCCTCATTTCACTTGAACCTCATGCAGAATCCAGAAACTAATCATCAACGAGTTTTTGGGATTTTTGGATTCACTGATCGAAATGCGACGTCGTTTCGGCGAGGAATCGACGTGAACCAGGCGGCGGTGGGGGATTTCGAGGACGAAAACGGCGTGTCGTCTCCGAACAGCACTGTGTCGAGCCTGAGCGGGAAGCGCAGCGAGAGAGGCGAAGACAACGAGGCGGAGAGGACTTCGTGCTCGCTCGGGGGTAGCGACGACGAGGACGGCATTGGCGGCGGCGACACGTCGAAGAAGAAGCTCCGGCTCACCAAGGAGCAGTCTCTCCTGCTTGAGGACATGTTCAAGGAGCACCATACTCTCAACACGAGGCAAAAGCAGGAATTGGCACAGAAGTTGAACCTGAGCGCAAGACAAGTGGAGGTGTGGTTTCAGAACAGGAGGGCAAGGACTAAGTTGAAGCAGACAGAGGTGGATTGTGATCAACTAAGGAAGTGCTGTGAGAATCTGACAGAAGAGAACAGGAGGTTGCAGAAAGAAGTGCAAGAGCTGAGGGCACTCAAGCTTTCGCCACAGTTCTACATGCAAATGAACCCCCCCACGACTCTCACCATGTGCCCTTCATGCCAATGTGTGGGTGTCTCATCCTCATCCTCATCTTCTGCTAGTGCTACCACTGCTTCCTCTACAGTTCCGGCAACCAGCCCAACTGGCCACCCAGGGCAGCCAACTATCCATCGGCCTGTTCCAATCAGCCCGTGGGCCACATTGCCGATCCCGCAGCATCGACCAGTTGATGCACCTGCACCTGCACCTGCACCTGCACCTCGGTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005911 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009506 GO:0009628 GO:0009639 GO:0009641 GO:0009719 GO:0009725 GO:0009889 GO:0010033 GO:0010218 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030054 GO:0031323 GO:0031326 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055044 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ HD-ZIP_N Homeobox

Protein Analysis

305

Amino Acids

33.19

Weight (kDa)

7.04

Isoelectric Point (pI)

59.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD-ZIP_N	PF04618	1 - 96	1.1e-19	HD-ZIP protein N terminus
Homeodomain	PF00046	125 - 179	1.1e-16	Homeodomain
HALZ	PF02183	181 - 215	1.6e-10	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: OG0013963)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G60390
fragaria_vesca	FvH4_7g09820 FvH4_7g09820 FvH4_7g09820
malus_domestica	MD02G1216800.v1.1
prunus_persica	Prupe.2G127300_v2.0.a1
pyrus_communis	pycom02g17850
rosa_chinensis	RchiOBHm_Chr1g0346981
rosa_laevigata	RLG00000028766
rosa_multiflora	Rmu_co8350045.1_g000001 Rmu_sc0002705.1_g000018
rosa_roxburghii	Rroxscaffold_4G00308000
rosa_samantha	Rh1AG202800 Rh1BG168800 Rh1CG187500 Rh1DG199500
rosa_wichuraiana	Rw1G016990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	4 cut(s)	892, 898, 904, 910
AatII	GACGTC	1 cut(s)	173
Acc36I	ACCTGC	4 cut(s)	892, 898, 904, 910
AccB7I	CCANNNNNTGG	1 cut(s)	715
AccBSI	CCGCTC	1 cut(s)	270
AciI	CCGC	7 cut(s)	203, 206, 270, 305, 357, 360, 860
AclWI	GGATC	1 cut(s)	850
AcoI	YGGCCR	1 cut(s)	793
AcyI	GRCGYC	1 cut(s)	170
AdeI	CACNNNGTG	1 cut(s)	696
AfiI	CCNNNNNNNGG	3 cut(s)	205, 415, 715
AflIII	ACRYGT	2 cut(s)	366, 420
AgsI	TTSAA	4 cut(s)	97, 427, 481, 541
AjiI	CACGTC	2 cut(s)	193, 369
AjnI	CCWGG	2 cut(s)	198, 799
AluBI	AGCT	3 cut(s)	382, 631, 646
AluI	AGCT	3 cut(s)	382, 631, 646
Alw21I	GWGCWC	2 cut(s)	323, 435
Alw26I	GTCTC	3 cut(s)	246, 408, 727
AlwI	GGATC	1 cut(s)	850
Ama87I	CYCGRG	1 cut(s)	326
AoxI	GGCC	3 cut(s)	793, 821, 843
ApeKI	GCWGC	3 cut(s)	279, 805, 862
AspLEI	GCGC	2 cut(s)	279, 491
AspS9I	GGNCC	1 cut(s)	843
AsuHPI	GGTGA	3 cut(s)	17, 382, 682
AvaI	CYCGRG	1 cut(s)	326
BaeGI	GKGCMC	2 cut(s)	640, 701
BalI	TGGCCA	1 cut(s)	795
BauI	CACGAG	1 cut(s)	448
BbsI	GAAGAC	2 cut(s)	60, 300
Bbv12I	GWGCWC	2 cut(s)	323, 435
BbvCI	CCTCAGC	1 cut(s)	632
BbvI	GCAGC	3 cut(s)	291, 817, 874
BccI	CCATC	1 cut(s)	825
BceAI	ACGGC	2 cut(s)	247, 364
BcgI	CGANNNNNNTGC	1 cut(s)	894
BciT130I	CCWGG	2 cut(s)	200, 801
BclI	TGATCA	1 cut(s)	562
BcoDI	GTCTC	3 cut(s)	246, 408, 727
BfaI	CTAG	1 cut(s)	747
BfmI	CTRYAG	1 cut(s)	768
BfuAI	ACCTGC	4 cut(s)	892, 898, 904, 910
BglI	GCCNNNNNGGC	1 cut(s)	792
BisI	GCNGC	6 cut(s)	204, 280, 358, 361, 806, 863
BlsI	GCNGC	6 cut(s)	205, 281, 359, 362, 807, 864
Bme1390I	CCNGG	2 cut(s)	200, 801
BmeT110I	CYCGRG	1 cut(s)	326
BmgBI	CACGTC	2 cut(s)	193, 369
BmgT120I	GGNCC	1 cut(s)	843
BmiI	GGNNCC	1 cut(s)	58
BmrFI	CCNGG	2 cut(s)	200, 801
BmsI	GCATC	2 cut(s)	868, 874
BpiI	GAAGAC	2 cut(s)	60, 300
Bpu10I	CCTNAGC	3 cut(s)	266, 485, 632
BpuEI	CTTGAG	2 cut(s)	434, 626
BsaBI	GATNNNNATC	1 cut(s)	561
BsaHI	GRCGYC	1 cut(s)	170
BsaJI	CCNNGG	5 cut(s)	393, 799, 800, 839, 908
BsaXI	ACNNNNNCTCC	2 cut(s)	494, 524
Bsc4I	CCNNNNNNNGG	3 cut(s)	205, 415, 715
Bse1I	ACTGG	2 cut(s)	796, 872
Bse3DI	GCAATG	1 cut(s)	848
Bse8I	GATNNNNATC	1 cut(s)	561
BseBI	CCWGG	2 cut(s)	200, 801
BseDI	CCNNGG	5 cut(s)	393, 799, 800, 839, 908
BseGI	GGATG	2 cut(s)	725, 731
BseJI	GATNNNNATC	1 cut(s)	561
BseLI	CCNNNNNNNGG	3 cut(s)	205, 415, 715
BseMI	GCAATG	1 cut(s)	848
BseMII	CTCAG	3 cut(s)	257, 476, 623
BseNI	ACTGG	2 cut(s)	796, 872
BseSI	GKGCMC	2 cut(s)	640, 701
BseXI	GCAGC	3 cut(s)	291, 817, 874
BsgI	GTGCAG	4 cut(s)	870, 876, 882, 888
Bsh1285I	CGRYCG	1 cut(s)	914
BshFI	GGCC	3 cut(s)	795, 823, 845
BsiEI	CGRYCG	1 cut(s)	914
BsiHKAI	GWGCWC	2 cut(s)	323, 435
BsiHKCI	CYCGRG	1 cut(s)	326
BsiSI	CCGG	2 cut(s)	385, 776
BslI	CCNNNNNNNGG	3 cut(s)	205, 415, 715
BsmAI	GTCTC	3 cut(s)	246, 408, 727
BsmBI	CGTCTC	1 cut(s)	246
BsnI	GGCC	3 cut(s)	795, 823, 845
BsoBI	CYCGRG	1 cut(s)	326
Bsp1286I	GDGCHC	4 cut(s)	323, 435, 640, 701
Bsp143I	GATC	3 cut(s)	157, 562, 855
BspACI	CCGC	7 cut(s)	203, 206, 270, 305, 357, 360, 860
BspANI	GGCC	3 cut(s)	795, 823, 845
BspCNI	CTCAG	3 cut(s)	258, 477, 624
BspLI	GGNNCC	1 cut(s)	58
BspMI	ACCTGC	4 cut(s)	892, 898, 904, 910
BspPI	GGATC	1 cut(s)	850
BsrBI	CCGCTC	1 cut(s)	270
BsrDI	GCAATG	1 cut(s)	848
BsrI	ACTGG	2 cut(s)	796, 872
BssECI	CCNNGG	5 cut(s)	393, 799, 800, 839, 908
BssMI	GATC	3 cut(s)	157, 562, 855
BssNI	GRCGYC	1 cut(s)	170
BssSI	CACGAG	1 cut(s)	448
BssT1I	CCWWGG	1 cut(s)	393
Bst2BI	CACGAG	1 cut(s)	448
Bst2UI	CCWGG	2 cut(s)	200, 801
Bst4CI	ACNGT	4 cut(s)	66, 256, 657, 772
Bst6I	CTCTTC	1 cut(s)	591
BstACI	GRCGYC	1 cut(s)	170
BstC8I	GCNNGC	1 cut(s)	323
BstDEI	CTNAG	5 cut(s)	266, 485, 534, 569, 632
BstDSI	CCRYGG	1 cut(s)	839
BstENI	CCTNNNNNAGG	1 cut(s)	413
BstF5I	GGATG	2 cut(s)	725, 731
BstHHI	GCGC	2 cut(s)	279, 491
BstKTI	GATC	3 cut(s)	160, 565, 858
BstMAI	GTCTC	3 cut(s)	246, 408, 727
BstMBI	GATC	3 cut(s)	157, 562, 855
BstMCI	CGRYCG	1 cut(s)	914
BstMWI	GCNNNNNNNGC	7 cut(s)	276, 288, 357, 705, 758, 792, 859
BstNI	CCWGG	2 cut(s)	200, 801
BstNSI	RCATGY	2 cut(s)	424, 667
BstSCI	CCNGG	2 cut(s)	198, 799
BstSFI	CTRYAG	1 cut(s)	768
BstSLI	GKGCMC	2 cut(s)	640, 701
BstV1I	GCAGC	3 cut(s)	291, 817, 874
BstV2I	GAAGAC	2 cut(s)	60, 300
BsuRI	GGCC	3 cut(s)	795, 823, 845
BtgI	CCRYGG	1 cut(s)	839
BtrI	CACGTC	2 cut(s)	193, 369
BtsCI	GGATG	2 cut(s)	725, 731
BtsI	GCAGTG	1 cut(s)	756
BtsIMutI	CAGTG	3 cut(s)	153, 252, 756
BveI	ACCTGC	4 cut(s)	892, 898, 904, 910
Cac8I	GCNNGC	1 cut(s)	323
CfoI	GCGC	2 cut(s)	279, 491
Cfr13I	GGNCC	1 cut(s)	843
CspCI	CAANNNNNGTGG	2 cut(s)	480, 515
CviAII	CATG	5 cut(s)	103, 421, 664, 694, 705
DdeI	CTNAG	5 cut(s)	266, 485, 534, 569, 632
DpnI	GATC	3 cut(s)	159, 564, 857
DpnII	GATC	3 cut(s)	157, 562, 855
DraIII	CACNNNGTG	1 cut(s)	696
EaeI	YGGCCR	1 cut(s)	793
Eam1104I	CTCTTC	1 cut(s)	591
EarI	CTCTTC	1 cut(s)	591
EciI	GGCGGA	1 cut(s)	320
Eco130I	CCWWGG	1 cut(s)	393
Eco88I	CYCGRG	1 cut(s)	326
EcoNI	CCTNNNNNAGG	1 cut(s)	413
EcoRII	CCWGG	2 cut(s)	198, 799
EcoT14I	CCWWGG	1 cut(s)	393
ErhI	CCWWGG	1 cut(s)	393
Esp3I	CGTCTC	1 cut(s)	246
FaeI	CATG	5 cut(s)	106, 424, 667, 697, 708
FaiI	YATR	7 cut(s)	54, 104, 422, 438, 665, 695, 706
FatI	CATG	5 cut(s)	102, 420, 663, 693, 704
FauI	CCCGC	2 cut(s)	263, 867
FbaI	TGATCA	1 cut(s)	562
Fnu4HI	GCNGC	6 cut(s)	204, 280, 358, 361, 806, 863
FokI	GGATG	2 cut(s)	712, 718
Fsp4HI	GCNGC	6 cut(s)	204, 280, 358, 361, 806, 863
FspBI	CTAG	1 cut(s)	747
GlaI	GCGC	2 cut(s)	278, 490
GluI	GCNGC	6 cut(s)	204, 280, 358, 361, 806, 863
HaeIII	GGCC	3 cut(s)	795, 823, 845
HapII	CCGG	2 cut(s)	385, 776
HhaI	GCGC	2 cut(s)	279, 491
Hin1I	GRCGYC	1 cut(s)	170
Hin1II	CATG	5 cut(s)	106, 424, 667, 697, 708
Hin6I	GCGC	2 cut(s)	277, 489
HinP1I	GCGC	2 cut(s)	277, 489
HindIII	AAGCTT	1 cut(s)	644
HinfI	GANTC	5 cut(s)	109, 150, 186, 586, 685
HpaII	CCGG	2 cut(s)	385, 776
HphI	GGTGA	3 cut(s)	17, 382, 682
Hpy166II	GTNNAC	1 cut(s)	196
Hpy188I	TCNGA	3 cut(s)	246, 516, 591
Hpy188III	TCNNGA	2 cut(s)	113, 915
Hpy8I	GTNNAC	1 cut(s)	196
Hpy99I	CGWCG	6 cut(s)	172, 175, 194, 341, 344, 373
HpyAV	CCTTC	1 cut(s)	711
HpyCH4III	ACNGT	4 cut(s)	66, 256, 657, 772
HpyCH4IV	ACGT	3 cut(s)	170, 192, 368
HpyCH4V	TGCA	9 cut(s)	106, 613, 625, 667, 881, 887, 893, 899, 905
HpyF10VI	GCNNNNNNNGC	7 cut(s)	276, 288, 357, 705, 758, 792, 859
HpyF3I	CTNAG	5 cut(s)	266, 485, 534, 569, 632
HpySE526I	ACGT	3 cut(s)	170, 192, 368
Hsp92I	GRCGYC	1 cut(s)	170
Hsp92II	CATG	5 cut(s)	106, 424, 667, 697, 708
HspAI	GCGC	2 cut(s)	277, 489
Ksp22I	TGATCA	1 cut(s)	562
Kzo9I	GATC	3 cut(s)	157, 562, 855
LmnI	GCTCC	4 cut(s)	56, 387, 397, 430
Lsp1109I	GCAGC	3 cut(s)	291, 817, 874
LweI	GCATC	2 cut(s)	868, 874
MaeI	CTAG	1 cut(s)	747
MaeII	ACGT	3 cut(s)	170, 192, 368
MaeIII	GTNAC	1 cut(s)	5
MalI	GATC	3 cut(s)	159, 564, 857
MbiI	CCGCTC	1 cut(s)	270
MboI	GATC	3 cut(s)	157, 562, 855
MhlI	GDGCHC	4 cut(s)	323, 435, 640, 701
MlsI	TGGCCA	1 cut(s)	795
MluCI	AATT	1 cut(s)	464
MluNI	TGGCCA	1 cut(s)	795
MlyI	GAGTC	1 cut(s)	679
Mox20I	TGGCCA	1 cut(s)	795
MscI	TGGCCA	1 cut(s)	795
MslI	CAYNNNNRTG	2 cut(s)	668, 709
Msp20I	TGGCCA	1 cut(s)	795
MspI	CCGG	2 cut(s)	385, 776
MspR9I	CCNGG	2 cut(s)	200, 801
MvaI	CCWGG	2 cut(s)	200, 801
MwoI	GCNNNNNNNGC	7 cut(s)	276, 288, 357, 705, 758, 792, 859
NdeII	GATC	3 cut(s)	157, 562, 855
NlaIII	CATG	5 cut(s)	106, 424, 667, 697, 708
NlaIV	GGNNCC	1 cut(s)	58
NmuCI	GTSAC	1 cut(s)	5
NspI	RCATGY	2 cut(s)	424, 667
PaqCI	CACCTGC	4 cut(s)	892, 898, 904, 910
PasI	CCCWGGG	1 cut(s)	800
PciI	ACATGT	1 cut(s)	420
PcsI	WCGNNNNNNNCGW	2 cut(s)	231, 333
PfeI	GAWTC	4 cut(s)	109, 150, 186, 586
PflMI	CCANNNNNTGG	1 cut(s)	715
PkrI	GCNGC	6 cut(s)	205, 281, 359, 362, 807, 864
PleI	GAGTC	1 cut(s)	679
PpsI	GAGTC	1 cut(s)	679
PscI	ACATGT	1 cut(s)	420
Psp6I	CCWGG	2 cut(s)	198, 799
PspGI	CCWGG	2 cut(s)	198, 799
PspN4I	GGNNCC	1 cut(s)	58
PspPI	GGNCC	1 cut(s)	843
RseI	CAYNNNNRTG	2 cut(s)	668, 709
SatI	GCNGC	6 cut(s)	204, 280, 358, 361, 806, 863
Sau3AI	GATC	3 cut(s)	157, 562, 855
Sau96I	GGNCC	1 cut(s)	843
SchI	GAGTC	1 cut(s)	679
ScrFI	CCNGG	2 cut(s)	200, 801
SduI	GDGCHC	4 cut(s)	323, 435, 640, 701
SfaNI	GCATC	2 cut(s)	868, 874
SfcI	CTRYAG	1 cut(s)	768
SmiMI	CAYNNNNRTG	2 cut(s)	668, 709
SmlI	CTYRAG	2 cut(s)	413, 641
SmoI	CTYRAG	2 cut(s)	413, 641
Sse9I	AATT	1 cut(s)	464
SsiI	CCGC	7 cut(s)	203, 206, 270, 305, 357, 360, 860
SspMI	CTAG	1 cut(s)	747
StyD4I	CCNGG	2 cut(s)	198, 799
StyI	CCWWGG	1 cut(s)	393
TaaI	ACNGT	4 cut(s)	66, 256, 657, 772
TaiI	ACGT	3 cut(s)	173, 195, 371
TaqI	TCGA	6 cut(s)	160, 189, 219, 260, 371, 868
TaqII	GACCGA	1 cut(s)	900
TasI	AATT	1 cut(s)	464
TauI	GCSGC	3 cut(s)	206, 360, 363
TfiI	GAWTC	4 cut(s)	109, 150, 186, 586
TscAI	CASTG	3 cut(s)	160, 259, 763
TseFI	GTSAC	1 cut(s)	5
TseI	GCWGC	3 cut(s)	279, 805, 862
Tsp45I	GTSAC	1 cut(s)	5
TspDTI	ATGAA	2 cut(s)	686, 693
TspRI	CASTG	3 cut(s)	160, 259, 763
Van91I	CCANNNNNTGG	1 cut(s)	715
XagI	CCTNNNNNAGG	1 cut(s)	413
XceI	RCATGY	2 cut(s)	424, 667
XcmI	CCANNNNNNNNNTGG	1 cut(s)	837
XspI	CTAG	1 cut(s)	747
ZraI	GACGTC	1 cut(s)	171

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