Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0002636

Physical Location & Seq

Genomic Coordinates Forward (+)

11547450 .. 11554430

Gene Structure 6981 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG136100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGGAAGAACTCTGCGGTTTCAGTAGTGGTTCTGATCATTATTACTCTTCTTCTTCTTCAATCGCTATGCCACAGGAAAACTCGCCACTCGCCGACTACTACAGGAGATTCGAGCCTCTAACGGCGGTTGTACCCGGGAGTAGCTCCGACCCGGTATATTATTACTCGGGTTCTAATTCATCCACCGTGTCCGATTGTGTTTCGGTGGCGGTAGCAGGAAATCAACGAGGAGGAGAAGAGGTGTCGTGTACTACCGTTAATGCTAAGATCGCTTCTCATCCTCTCTACCCTAATCTTGTTCAAGCTTACATCGATTGCCAAAAGGTGGGAGCGCCTCCGCAAATAGCGCATATTTTGGAGGAAATCCGGCGAGAAAGTGATCAGCTCAGTAGGATAACCGTCGGTTCGAGTTGCATGGGTGTCGATCCTGAGCTCGATGAGTTCATGGAAACTTACTGTGATATATTGTTGAAGTACAAATCGGATCTGACAAAGCCGTTCAACGAAGCAATCACCTTCTTGAACAGCATGGAGACGCAGCTCAACAATCTCGCCAATACCACTGATGCTCCAGCAGTTAATTCTTCTGATGACGAAGACTTGAGTGGAGGAGAGATCGATGTACAGGACTCTGATCATCAGCGAAAACATGAAGATCATGAATTGAAGGACAAGCTGTTGCGTAAATACAGTGGTTATATAAGCACTCTGAAGCATGAGTTTTCTAAGAAAAAGAAGAAGGGAAAGCTGCCTAAAGATGCTAAGAAAATCCTTATGGATTGGTGGAACCTTCACTATAAATGGCCATATCCAACGGTACGTGTTACTTATTAA

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

277

Amino Acids

31.08

Weight (kDa)

5.21

Isoelectric Point (pI)

49.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	87 - 127	4.8e-20	KNOX1 domain
KNOX2	PF03791	138 - 184	4.3e-24	KNOX2 domain
ELK	PF03789	221 - 242	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)	325
AciI	CCGC	4 cut(s)	15, 125, 209, 338
AclWI	GGATC	2 cut(s)	419, 492
AcoI	YGGCCR	1 cut(s)	803
AcuI	CTGAAG	1 cut(s)	731
AfaI	GTAC	5 cut(s)	132, 250, 476, 624, 819
AfiI	CCNNNNNNNGG	1 cut(s)	325
AflIII	ACRYGT	1 cut(s)	820
AgsI	TTSAA	6 cut(s)	60, 302, 472, 502, 523, 667
AluBI	AGCT	7 cut(s)	144, 305, 385, 433, 541, 676, 748
AluI	AGCT	7 cut(s)	144, 305, 385, 433, 541, 676, 748
Alw21I	GWGCWC	1 cut(s)	435
Alw26I	GTCTC	1 cut(s)	527
AlwI	GGATC	2 cut(s)	419, 492
Ama87I	CYCGRG	2 cut(s)	134, 166
AoxI	GGCC	1 cut(s)	803
ApeKI	GCWGC	2 cut(s)	538, 748
AspLEI	GCGC	2 cut(s)	334, 349
AsuC2I	CCSGG	3 cut(s)	135, 136, 152
AsuHPI	GGTGA	1 cut(s)	505
AvaI	CYCGRG	2 cut(s)	134, 166
BalI	TGGCCA	1 cut(s)	805
BanII	GRGCYC	1 cut(s)	435
BbsI	GAAGAC	1 cut(s)	603
Bbv12I	GWGCWC	1 cut(s)	435
BbvI	GCAGC	2 cut(s)	550, 735
BceAI	ACGGC	2 cut(s)	138, 481
BcgI	CGANNNNNNTGC	2 cut(s)	403, 437
BclI	TGATCA	3 cut(s)	34, 379, 634
BcnI	CCSGG	3 cut(s)	135, 136, 152
BcoDI	GTCTC	1 cut(s)	527
BfmI	CTRYAG	1 cut(s)	100
BfoI	RGCGCY	1 cut(s)	335
BisI	GCNGC	2 cut(s)	539, 749
BlsI	GCNGC	2 cut(s)	540, 750
Bme1390I	CCNGG	3 cut(s)	135, 136, 152
BmeT110I	CYCGRG	2 cut(s)	134, 166
BmiI	GGNNCC	1 cut(s)	788
BmrFI	CCNGG	3 cut(s)	135, 136, 152
BmsI	GCATC	2 cut(s)	556, 748
BpiI	GAAGAC	1 cut(s)	603
BpmI	CTGGAG	1 cut(s)	555
Bpu10I	CCTNAGC	1 cut(s)	429
BpuEI	CTTGAG	1 cut(s)	622
BpuMI	CCSGG	3 cut(s)	135, 136, 152
Bsa29I	ATCGAT	2 cut(s)	312, 618
BsaAI	YACGTR	1 cut(s)	821
BsaJI	CCNNGG	1 cut(s)	134
BsaXI	ACNNNNNCTCC	4 cut(s)	225, 255, 553, 583
Bsc4I	CCNNNNNNNGG	1 cut(s)	325
BseCI	ATCGAT	2 cut(s)	312, 618
BseDI	CCNNGG	1 cut(s)	134
BseGI	GGATG	2 cut(s)	179, 277
BseLI	CCNNNNNNNGG	1 cut(s)	325
BseMII	CTCAG	2 cut(s)	400, 420
BseRI	GAGGAG	3 cut(s)	243, 246, 624
BseXI	GCAGC	2 cut(s)	550, 735
BshFI	GGCC	1 cut(s)	805
BshVI	ATCGAT	2 cut(s)	312, 618
BsiHKAI	GWGCWC	1 cut(s)	435
BsiHKCI	CYCGRG	2 cut(s)	134, 166
BsiSI	CCGG	3 cut(s)	135, 152, 367
BslI	CCNNNNNNNGG	1 cut(s)	325
BsmAI	GTCTC	1 cut(s)	527
BsmBI	CGTCTC	1 cut(s)	527
BsnI	GGCC	1 cut(s)	805
BsoBI	CYCGRG	2 cut(s)	134, 166
Bsp1286I	GDGCHC	1 cut(s)	435
Bsp1407I	TGTACA	1 cut(s)	622
Bsp143I	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
BspACI	CCGC	4 cut(s)	15, 125, 209, 338
BspANI	GGCC	1 cut(s)	805
BspCNI	CTCAG	2 cut(s)	399, 421
BspDI	ATCGAT	2 cut(s)	312, 618
BspHI	TCATGA	1 cut(s)	658
BspLI	GGNNCC	1 cut(s)	788
BspPI	GGATC	2 cut(s)	419, 492
BsrGI	TGTACA	1 cut(s)	622
BssECI	CCNNGG	1 cut(s)	134
BssMI	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
Bst4CI	ACNGT	6 cut(s)	187, 256, 400, 458, 692, 817
Bst6I	CTCTTC	2 cut(s)	52, 231
BstAUI	TGTACA	1 cut(s)	622
BstBAI	YACGTR	1 cut(s)	821
BstDEI	CTNAG	5 cut(s)	264, 386, 429, 726, 762
BstF5I	GGATG	2 cut(s)	179, 277
BstH2I	RGCGCY	1 cut(s)	335
BstHHI	GCGC	2 cut(s)	334, 349
BstKTI	GATC	8 cut(s)	37, 270, 382, 427, 487, 618, 637, 658
BstMAI	GTCTC	1 cut(s)	527
BstMBI	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
BstMWI	GCNNNNNNNGC	2 cut(s)	269, 346
BstSCI	CCNGG	3 cut(s)	133, 134, 150
BstSFI	CTRYAG	1 cut(s)	100
BstV1I	GCAGC	2 cut(s)	550, 735
BstV2I	GAAGAC	1 cut(s)	603
BstX2I	RGATCY	1 cut(s)	484
BstYI	RGATCY	1 cut(s)	484
Bsu15I	ATCGAT	2 cut(s)	312, 618
BsuRI	GGCC	1 cut(s)	805
BsuTUI	ATCGAT	2 cut(s)	312, 618
BtsCI	GGATG	2 cut(s)	179, 277
BtsIMutI	CAGTG	2 cut(s)	561, 697
CciI	TCATGA	1 cut(s)	658
CfoI	GCGC	2 cut(s)	334, 349
Cfr9I	CCCGGG	1 cut(s)	134
ClaI	ATCGAT	2 cut(s)	312, 618
CseI	GACGC	1 cut(s)	544
Csp6I	GTAC	5 cut(s)	131, 249, 475, 623, 818
CviAII	CATG	6 cut(s)	415, 445, 529, 650, 659, 716
CviQI	GTAC	5 cut(s)	131, 249, 475, 623, 818
DdeI	CTNAG	5 cut(s)	264, 386, 429, 726, 762
DpnI	GATC	8 cut(s)	36, 269, 381, 426, 486, 617, 636, 657
DpnII	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
EaeI	YGGCCR	1 cut(s)	803
Eam1104I	CTCTTC	2 cut(s)	52, 231
EarI	CTCTTC	2 cut(s)	52, 231
Ecl136II	GAGCTC	1 cut(s)	433
Eco24I	GRGCYC	1 cut(s)	435
Eco53kI	GAGCTC	1 cut(s)	433
Eco57I	CTGAAG	1 cut(s)	731
Eco88I	CYCGRG	2 cut(s)	134, 166
EcoICRI	GAGCTC	1 cut(s)	433
EcoT38I	GRGCYC	1 cut(s)	435
Esp3I	CGTCTC	1 cut(s)	527
FaeI	CATG	6 cut(s)	418, 448, 532, 653, 662, 719
FatI	CATG	6 cut(s)	414, 444, 528, 649, 658, 715
FbaI	TGATCA	3 cut(s)	34, 379, 634
Fnu4HI	GCNGC	2 cut(s)	539, 749
FokI	GGATG	2 cut(s)	166, 264
FriOI	GRGCYC	1 cut(s)	435
Fsp4HI	GCNGC	2 cut(s)	539, 749
GlaI	GCGC	2 cut(s)	333, 348
GluI	GCNGC	2 cut(s)	539, 749
GsuI	CTGGAG	1 cut(s)	555
HaeII	RGCGCY	1 cut(s)	335
HaeIII	GGCC	1 cut(s)	805
HapII	CCGG	3 cut(s)	135, 152, 367
HgaI	GACGC	1 cut(s)	544
HhaI	GCGC	2 cut(s)	334, 349
Hin1II	CATG	6 cut(s)	418, 448, 532, 653, 662, 719
Hin6I	GCGC	2 cut(s)	332, 347
HinP1I	GCGC	2 cut(s)	332, 347
HindIII	AAGCTT	1 cut(s)	303
HinfI	GANTC	2 cut(s)	108, 629
HpaII	CCGG	3 cut(s)	135, 152, 367
HphI	GGTGA	1 cut(s)	505
Hpy166II	GTNNAC	1 cut(s)	249
Hpy188I	TCNGA	8 cut(s)	34, 148, 193, 484, 489, 589, 634, 711
Hpy188III	TCNNGA	3 cut(s)	428, 520, 659
Hpy8I	GTNNAC	1 cut(s)	249
Hpy99I	CGWCG	1 cut(s)	404
HpyAV	CCTTC	4 cut(s)	526, 661, 733, 800
HpyCH4III	ACNGT	6 cut(s)	187, 256, 400, 458, 692, 817
HpyCH4IV	ACGT	1 cut(s)	820
HpyCH4V	TGCA	1 cut(s)	414
HpyF10VI	GCNNNNNNNGC	2 cut(s)	269, 346
HpyF3I	CTNAG	5 cut(s)	264, 386, 429, 726, 762
HpySE526I	ACGT	1 cut(s)	820
Hsp92II	CATG	6 cut(s)	418, 448, 532, 653, 662, 719
HspAI	GCGC	2 cut(s)	332, 347
Ksp22I	TGATCA	3 cut(s)	34, 379, 634
Kzo9I	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
LmnI	GCTCC	3 cut(s)	149, 329, 574
LpnPI	CCDG	9 cut(s)	59, 88, 148, 165, 201, 380, 441, 585, 611
Lsp1109I	GCAGC	2 cut(s)	550, 735
LweI	GCATC	2 cut(s)	556, 748
MaeII	ACGT	1 cut(s)	820
MaeIII	GTNAC	1 cut(s)	823
MalI	GATC	8 cut(s)	36, 269, 381, 426, 486, 617, 636, 657
MboI	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
MflI	RGATCY	1 cut(s)	484
MhlI	GDGCHC	1 cut(s)	435
MlsI	TGGCCA	1 cut(s)	805
MluCI	AATT	3 cut(s)	175, 580, 662
MluNI	TGGCCA	1 cut(s)	805
MlyI	GAGTC	1 cut(s)	623
MmeI	TCCRAC	1 cut(s)	171
MnlI	CCTC	8 cut(s)	126, 221, 224, 232, 291, 345, 352, 602
Mox20I	TGGCCA	1 cut(s)	805
MscI	TGGCCA	1 cut(s)	805
MseI	TTAA	3 cut(s)	258, 579, 832
Msp20I	TGGCCA	1 cut(s)	805
MspI	CCGG	3 cut(s)	135, 152, 367
MspR9I	CCNGG	3 cut(s)	135, 136, 152
MwoI	GCNNNNNNNGC	2 cut(s)	269, 346
NciI	CCSGG	3 cut(s)	135, 136, 152
NdeII	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
NlaIII	CATG	6 cut(s)	418, 448, 532, 653, 662, 719
NlaIV	GGNNCC	1 cut(s)	788
PagI	TCATGA	1 cut(s)	658
PfeI	GAWTC	1 cut(s)	108
PflMI	CCANNNNNTGG	1 cut(s)	325
PkrI	GCNGC	2 cut(s)	540, 750
PleI	GAGTC	1 cut(s)	623
PpsI	GAGTC	1 cut(s)	623
Ppu21I	YACGTR	1 cut(s)	821
Psp124BI	GAGCTC	1 cut(s)	435
PspN4I	GGNNCC	1 cut(s)	788
PsuI	RGATCY	1 cut(s)	484
RsaI	GTAC	5 cut(s)	132, 250, 476, 624, 819
RsaNI	GTAC	5 cut(s)	131, 249, 475, 623, 818
SacI	GAGCTC	1 cut(s)	435
SaqAI	TTAA	3 cut(s)	258, 579, 832
SatI	GCNGC	2 cut(s)	539, 749
Sau3AI	GATC	8 cut(s)	34, 267, 379, 424, 484, 615, 634, 655
SchI	GAGTC	1 cut(s)	623
ScrFI	CCNGG	3 cut(s)	135, 136, 152
SduI	GDGCHC	1 cut(s)	435
SfaNI	GCATC	2 cut(s)	556, 748
SfcI	CTRYAG	1 cut(s)	100
SmaI	CCCGGG	1 cut(s)	136
SmlI	CTYRAG	1 cut(s)	601
SmoI	CTYRAG	1 cut(s)	601
Sse9I	AATT	3 cut(s)	175, 580, 662
SsiI	CCGC	4 cut(s)	15, 125, 209, 338
SstI	GAGCTC	1 cut(s)	435
StyD4I	CCNGG	3 cut(s)	133, 134, 150
TaaI	ACNGT	6 cut(s)	187, 256, 400, 458, 692, 817
TaiI	ACGT	1 cut(s)	823
TaqI	TCGA	6 cut(s)	111, 312, 407, 423, 435, 618
TasI	AATT	3 cut(s)	175, 580, 662
TatI	WGTACW	3 cut(s)	248, 474, 622
TfiI	GAWTC	1 cut(s)	108
Tru1I	TTAA	3 cut(s)	258, 579, 832
Tru9I	TTAA	3 cut(s)	258, 579, 832
TscAI	CASTG	2 cut(s)	568, 697
TseI	GCWGC	2 cut(s)	538, 748
TspDTI	ATGAA	4 cut(s)	168, 433, 666, 675
TspMI	CCCGGG	1 cut(s)	134
TspRI	CASTG	2 cut(s)	568, 697
Van91I	CCANNNNNTGG	1 cut(s)	325
XmaI	CCCGGG	1 cut(s)	134

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