Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0002636

Physical Location & Seq

Genomic Coordinates Forward (+)

11239791 .. 11245732

Gene Structure 5942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG138100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 831 bp

ATGGAAGAACTCTGCGGTTTCAGTAGTGGTTCTGATCATTATTACTCTTCTTCTTCAATCGCTATGCCACAGGAAAACTCGCCACTCGCCGACTACTACAGGAGATTCGAGCCTCTAACGGCGGTTGTACCCGGGAGTAGCTCCGACCCGGTATATTATTACTCGGGTTCTAATTCATCCACCGTGTCCGATTGTGTTTCGGTGGCGGTAGCAGGAAATCAACGAGGAGGAGAAGAGGTGTCGTGTACTACCGTTAATGCTAAGATCGCTTCTCATCCTCTCTACCCTAATCTTGTTCAAGCTTACATCGATTGCCAAAAGGTGGGAGCGCCTCCGCAAATAGCGCATATTTTGGAGGAAATCCGGCGAGAAAGTGATCAGCTCAGTAGGATAACCGTCGGTTCGAGTTGCATGGGTGTCGATCCTGAGCTCGATGAGTTCATGGAAACTTACTGTGATATATTGTTGAAGTACAAATCGGATCTGACAAAGCCGTTCAACGAAGCAATCACCTTCTTGAACAGCATGGAGACGCAGCTCAACAATCTCGCCAATACCACTGATGCTCCAGCAGTTAATTCTTCTGATGACGAAGACTTGAGTGGAGGAGAGATCGATGTACAGGACTCTGATCATCAGCGAAAACATGAAGATCATGAATTGAAGGACAAGCTGTTGCGTAAATACAGTGGTTATATAAGCACTCTGAAGCATGAGTTTTCTAAGAAAAAGAAGAAGGGAAAGCTGCCTAAAGATGCTAAGCAAATCCTTATGGATTGGTGGAACCTTCACTATAAATGGCCATATCCAACGGTACGTGTTGCTTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009888 GO:0009889 GO:0010073 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048507 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 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

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

276

Amino Acids

30.96

Weight (kDa)

5.12

Isoelectric Point (pI)

50.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	86 - 126	4.7e-20	KNOX1 domain
KNOX2	PF03791	137 - 183	4.2e-24	KNOX2 domain
ELK	PF03789	220 - 241	1.4e-11	ELK domain

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: OG0002636)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23380 AT1G23380 AT1G70510 AT1G70510
fragaria_vesca	FvH4_4g26090 FvH4_4g26090 FvH4_4g26090 FvH4_4g26090 FvH4_5g05530 FvH4_5g05530
malus_domestica	MD06G1171700.v1.1 MD13G1095800.v1.1 MD14G1177200.v1.1 MD16G1097200.v1.1
prunus_persica	Prupe.1G249600_v2.0.a1 Prupe.5G171100_v2.0.a1
pyrus_communis	pycom06g15280 pycom13g08340 pycom14g14800 pycom16g08280
rosa_chinensis	RchiOBHm_Chr4g0433571 RchiOBHm_Chr7g0193251
rosa_laevigata	RLG00000004283 RLG00000006743
rosa_multiflora	Rmu_sc0017266.1_g000003
rosa_roxburghii	Rroxscaffold_3G00262250 Rroxscaffold_5G00375060
rosa_rugosa	Rorug04G0269800 Rorug07G0008500 Rorug07G0008600
rosa_samantha	Rh4AG324700 Rh4BG332400 Rh4CG347700 Rh4DG328800 Rh7AG134100 Rh7BG135100 Rh7CG138100 Rh7DG136100
rosa_wichuraiana	Rw4G028100 Rw7G011470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	322
AciI	CCGC	4 cut(s)	15, 122, 206, 335
AclWI	GGATC	2 cut(s)	416, 489
AcoI	YGGCCR	1 cut(s)	800
AcuI	CTGAAG	1 cut(s)	728
AfaI	GTAC	5 cut(s)	129, 247, 473, 621, 816
AfiI	CCNNNNNNNGG	1 cut(s)	322
AflIII	ACRYGT	1 cut(s)	817
AgsI	TTSAA	6 cut(s)	57, 299, 469, 499, 520, 664
AluBI	AGCT	7 cut(s)	141, 302, 382, 430, 538, 673, 745
AluI	AGCT	7 cut(s)	141, 302, 382, 430, 538, 673, 745
Alw21I	GWGCWC	1 cut(s)	432
Alw26I	GTCTC	1 cut(s)	524
AlwI	GGATC	2 cut(s)	416, 489
Ama87I	CYCGRG	2 cut(s)	131, 163
AoxI	GGCC	1 cut(s)	800
ApeKI	GCWGC	2 cut(s)	535, 745
AspLEI	GCGC	2 cut(s)	331, 346
AsuC2I	CCSGG	3 cut(s)	132, 133, 149
AsuHPI	GGTGA	1 cut(s)	502
AvaI	CYCGRG	2 cut(s)	131, 163
BalI	TGGCCA	1 cut(s)	802
BanII	GRGCYC	1 cut(s)	432
BbsI	GAAGAC	1 cut(s)	600
Bbv12I	GWGCWC	1 cut(s)	432
BbvI	GCAGC	2 cut(s)	547, 732
BceAI	ACGGC	2 cut(s)	135, 478
BcgI	CGANNNNNNTGC	2 cut(s)	400, 434
BclI	TGATCA	3 cut(s)	34, 376, 631
BcnI	CCSGG	3 cut(s)	132, 133, 149
BcoDI	GTCTC	1 cut(s)	524
BfmI	CTRYAG	1 cut(s)	97
BfoI	RGCGCY	1 cut(s)	332
BisI	GCNGC	2 cut(s)	536, 746
BlpI	GCTNAGC	1 cut(s)	759
BlsI	GCNGC	2 cut(s)	537, 747
Bme1390I	CCNGG	3 cut(s)	132, 133, 149
BmeT110I	CYCGRG	2 cut(s)	131, 163
BmiI	GGNNCC	1 cut(s)	785
BmrFI	CCNGG	3 cut(s)	132, 133, 149
BmsI	GCATC	2 cut(s)	553, 745
BpiI	GAAGAC	1 cut(s)	600
BpmI	CTGGAG	1 cut(s)	552
Bpu10I	CCTNAGC	1 cut(s)	426
Bpu1102I	GCTNAGC	1 cut(s)	759
BpuEI	CTTGAG	1 cut(s)	619
BpuMI	CCSGG	3 cut(s)	132, 133, 149
Bsa29I	ATCGAT	2 cut(s)	309, 615
BsaAI	YACGTR	1 cut(s)	818
BsaJI	CCNNGG	1 cut(s)	131
BsaXI	ACNNNNNCTCC	4 cut(s)	222, 252, 550, 580
Bsc4I	CCNNNNNNNGG	1 cut(s)	322
BseCI	ATCGAT	2 cut(s)	309, 615
BseDI	CCNNGG	1 cut(s)	131
BseGI	GGATG	2 cut(s)	176, 274
BseLI	CCNNNNNNNGG	1 cut(s)	322
BseMII	CTCAG	2 cut(s)	397, 417
BseRI	GAGGAG	3 cut(s)	240, 243, 621
BseXI	GCAGC	2 cut(s)	547, 732
BshFI	GGCC	1 cut(s)	802
BshVI	ATCGAT	2 cut(s)	309, 615
BsiHKAI	GWGCWC	1 cut(s)	432
BsiHKCI	CYCGRG	2 cut(s)	131, 163
BsiSI	CCGG	3 cut(s)	132, 149, 364
BslI	CCNNNNNNNGG	1 cut(s)	322
BsmAI	GTCTC	1 cut(s)	524
BsmBI	CGTCTC	1 cut(s)	524
BsnI	GGCC	1 cut(s)	802
BsoBI	CYCGRG	2 cut(s)	131, 163
Bsp1286I	GDGCHC	1 cut(s)	432
Bsp1407I	TGTACA	1 cut(s)	619
Bsp143I	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
Bsp1720I	GCTNAGC	1 cut(s)	759
BspACI	CCGC	4 cut(s)	15, 122, 206, 335
BspANI	GGCC	1 cut(s)	802
BspCNI	CTCAG	2 cut(s)	396, 418
BspDI	ATCGAT	2 cut(s)	309, 615
BspHI	TCATGA	1 cut(s)	655
BspLI	GGNNCC	1 cut(s)	785
BspPI	GGATC	2 cut(s)	416, 489
BsrGI	TGTACA	1 cut(s)	619
BssECI	CCNNGG	1 cut(s)	131
BssMI	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
Bst4CI	ACNGT	6 cut(s)	184, 253, 397, 455, 689, 814
Bst6I	CTCTTC	2 cut(s)	52, 228
BstAUI	TGTACA	1 cut(s)	619
BstBAI	YACGTR	1 cut(s)	818
BstDEI	CTNAG	5 cut(s)	261, 383, 426, 723, 759
BstF5I	GGATG	2 cut(s)	176, 274
BstH2I	RGCGCY	1 cut(s)	332
BstHHI	GCGC	2 cut(s)	331, 346
BstKTI	GATC	8 cut(s)	37, 267, 379, 424, 484, 615, 634, 655
BstMAI	GTCTC	1 cut(s)	524
BstMBI	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
BstMWI	GCNNNNNNNGC	2 cut(s)	266, 343
BstSCI	CCNGG	3 cut(s)	130, 131, 147
BstSFI	CTRYAG	1 cut(s)	97
BstV1I	GCAGC	2 cut(s)	547, 732
BstV2I	GAAGAC	1 cut(s)	600
BstX2I	RGATCY	1 cut(s)	481
BstYI	RGATCY	1 cut(s)	481
Bsu15I	ATCGAT	2 cut(s)	309, 615
BsuRI	GGCC	1 cut(s)	802
BsuTUI	ATCGAT	2 cut(s)	309, 615
BtsCI	GGATG	2 cut(s)	176, 274
BtsIMutI	CAGTG	2 cut(s)	558, 694
CciI	TCATGA	1 cut(s)	655
CfoI	GCGC	2 cut(s)	331, 346
Cfr9I	CCCGGG	1 cut(s)	131
ClaI	ATCGAT	2 cut(s)	309, 615
CseI	GACGC	1 cut(s)	541
Csp6I	GTAC	5 cut(s)	128, 246, 472, 620, 815
CviAII	CATG	6 cut(s)	412, 442, 526, 647, 656, 713
CviQI	GTAC	5 cut(s)	128, 246, 472, 620, 815
DdeI	CTNAG	5 cut(s)	261, 383, 426, 723, 759
DpnI	GATC	8 cut(s)	36, 266, 378, 423, 483, 614, 633, 654
DpnII	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
EaeI	YGGCCR	1 cut(s)	800
Eam1104I	CTCTTC	2 cut(s)	52, 228
EarI	CTCTTC	2 cut(s)	52, 228
Ecl136II	GAGCTC	1 cut(s)	430
Eco24I	GRGCYC	1 cut(s)	432
Eco53kI	GAGCTC	1 cut(s)	430
Eco57I	CTGAAG	1 cut(s)	728
Eco88I	CYCGRG	2 cut(s)	131, 163
EcoICRI	GAGCTC	1 cut(s)	430
EcoT38I	GRGCYC	1 cut(s)	432
Esp3I	CGTCTC	1 cut(s)	524
FaeI	CATG	6 cut(s)	415, 445, 529, 650, 659, 716
FatI	CATG	6 cut(s)	411, 441, 525, 646, 655, 712
FbaI	TGATCA	3 cut(s)	34, 376, 631
Fnu4HI	GCNGC	2 cut(s)	536, 746
FokI	GGATG	2 cut(s)	163, 261
FriOI	GRGCYC	1 cut(s)	432
Fsp4HI	GCNGC	2 cut(s)	536, 746
GlaI	GCGC	2 cut(s)	330, 345
GluI	GCNGC	2 cut(s)	536, 746
GsuI	CTGGAG	1 cut(s)	552
HaeII	RGCGCY	1 cut(s)	332
HaeIII	GGCC	1 cut(s)	802
HapII	CCGG	3 cut(s)	132, 149, 364
HgaI	GACGC	1 cut(s)	541
HhaI	GCGC	2 cut(s)	331, 346
Hin1II	CATG	6 cut(s)	415, 445, 529, 650, 659, 716
Hin6I	GCGC	2 cut(s)	329, 344
HinP1I	GCGC	2 cut(s)	329, 344
HindIII	AAGCTT	1 cut(s)	300
HinfI	GANTC	2 cut(s)	105, 626
HpaII	CCGG	3 cut(s)	132, 149, 364
HphI	GGTGA	1 cut(s)	502
Hpy166II	GTNNAC	1 cut(s)	246
Hpy188I	TCNGA	8 cut(s)	34, 145, 190, 481, 486, 586, 631, 708
Hpy188III	TCNNGA	3 cut(s)	425, 517, 656
Hpy8I	GTNNAC	1 cut(s)	246
Hpy99I	CGWCG	1 cut(s)	401
HpyAV	CCTTC	4 cut(s)	523, 658, 730, 797
HpyCH4III	ACNGT	6 cut(s)	184, 253, 397, 455, 689, 814
HpyCH4IV	ACGT	1 cut(s)	817
HpyCH4V	TGCA	1 cut(s)	411
HpyF10VI	GCNNNNNNNGC	2 cut(s)	266, 343
HpyF3I	CTNAG	5 cut(s)	261, 383, 426, 723, 759
HpySE526I	ACGT	1 cut(s)	817
Hsp92II	CATG	6 cut(s)	415, 445, 529, 650, 659, 716
HspAI	GCGC	2 cut(s)	329, 344
Ksp22I	TGATCA	3 cut(s)	34, 376, 631
Kzo9I	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
LmnI	GCTCC	3 cut(s)	146, 326, 571
LpnPI	CCDG	9 cut(s)	56, 85, 145, 162, 198, 377, 438, 582, 608
Lsp1109I	GCAGC	2 cut(s)	547, 732
LweI	GCATC	2 cut(s)	553, 745
MaeII	ACGT	1 cut(s)	817
MalI	GATC	8 cut(s)	36, 266, 378, 423, 483, 614, 633, 654
MboI	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
MboII	GAAGA	9 cut(s)	17, 39, 42, 45, 245, 573, 605, 662, 745
MflI	RGATCY	1 cut(s)	481
MhlI	GDGCHC	1 cut(s)	432
MlsI	TGGCCA	1 cut(s)	802
MluCI	AATT	3 cut(s)	172, 577, 659
MluNI	TGGCCA	1 cut(s)	802
MlyI	GAGTC	1 cut(s)	620
MmeI	TCCRAC	1 cut(s)	168
MnlI	CCTC	8 cut(s)	123, 218, 221, 229, 288, 342, 349, 599
Mox20I	TGGCCA	1 cut(s)	802
MscI	TGGCCA	1 cut(s)	802
MseI	TTAA	3 cut(s)	255, 576, 829
Msp20I	TGGCCA	1 cut(s)	802
MspI	CCGG	3 cut(s)	132, 149, 364
MspR9I	CCNGG	3 cut(s)	132, 133, 149
MwoI	GCNNNNNNNGC	2 cut(s)	266, 343
NciI	CCSGG	3 cut(s)	132, 133, 149
NdeII	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
NlaIII	CATG	6 cut(s)	415, 445, 529, 650, 659, 716
NlaIV	GGNNCC	1 cut(s)	785
PagI	TCATGA	1 cut(s)	655
PfeI	GAWTC	1 cut(s)	105
PflMI	CCANNNNNTGG	1 cut(s)	322
PkrI	GCNGC	2 cut(s)	537, 747
PleI	GAGTC	1 cut(s)	620
PpsI	GAGTC	1 cut(s)	620
Ppu21I	YACGTR	1 cut(s)	818
Psp124BI	GAGCTC	1 cut(s)	432
PspN4I	GGNNCC	1 cut(s)	785
PsuI	RGATCY	1 cut(s)	481
RsaI	GTAC	5 cut(s)	129, 247, 473, 621, 816
RsaNI	GTAC	5 cut(s)	128, 246, 472, 620, 815
SacI	GAGCTC	1 cut(s)	432
SaqAI	TTAA	3 cut(s)	255, 576, 829
SatI	GCNGC	2 cut(s)	536, 746
Sau3AI	GATC	8 cut(s)	34, 264, 376, 421, 481, 612, 631, 652
SchI	GAGTC	1 cut(s)	620
ScrFI	CCNGG	3 cut(s)	132, 133, 149
SduI	GDGCHC	1 cut(s)	432
SfaNI	GCATC	2 cut(s)	553, 745
SfcI	CTRYAG	1 cut(s)	97
SmaI	CCCGGG	1 cut(s)	133
SmlI	CTYRAG	1 cut(s)	598
SmoI	CTYRAG	1 cut(s)	598
Sse9I	AATT	3 cut(s)	172, 577, 659
SsiI	CCGC	4 cut(s)	15, 122, 206, 335
SstI	GAGCTC	1 cut(s)	432
StyD4I	CCNGG	3 cut(s)	130, 131, 147
TaaI	ACNGT	6 cut(s)	184, 253, 397, 455, 689, 814
TaiI	ACGT	1 cut(s)	820
TaqI	TCGA	6 cut(s)	108, 309, 404, 420, 432, 615
TasI	AATT	3 cut(s)	172, 577, 659
TatI	WGTACW	3 cut(s)	245, 471, 619
TfiI	GAWTC	1 cut(s)	105
Tru1I	TTAA	3 cut(s)	255, 576, 829
Tru9I	TTAA	3 cut(s)	255, 576, 829
TscAI	CASTG	2 cut(s)	565, 694
TseI	GCWGC	2 cut(s)	535, 745
TspDTI	ATGAA	4 cut(s)	165, 430, 663, 672
TspMI	CCCGGG	1 cut(s)	131
TspRI	CASTG	2 cut(s)	565, 694
Van91I	CCANNNNNTGG	1 cut(s)	322
XmaI	CCCGGG	1 cut(s)	131

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