Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003406

Physical Location & Seq

Genomic Coordinates Reverse (-)

54574896 .. 54585398

Gene Structure 10503 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00323660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGGCACCTGCAGCTAAGAGGGTCATGACGTGGCGCTGTTTCCAAGAATCACCAAAAACTTCCACTAAAATTTCCAATGCTACTCAACAACCGATTACAACACAAAAATCACAAGGGAGAAACAAGCAACTTGGAATTTCGGGGCCGAACTCGAGAGGTCACTCGCCATTCACCACCGAGCGCCGCATCCTTCAAGCTCCAGCGAGCTACCCCCCGCCCAAAACTATAAAGCTGCAACAACTCCACCATCGGTACAGAACTAGGTTGAAAGGAGAACCGGTGGCTTCACAGACATATGTACCGCATGCGGAGACCGAAGACCTGGTTTTGCAAGCTATTGAGGCTGTTGTTTCCGGTTGTGAAGGACGAAAAAGTGCTGCATCAAAACGAGCCTTTACCGATGCATGTGCAGTACTTTTAAAACATACAAGTAGCCTCTCGGCCGAAAAGTTGATCGATGACACTGCAGCTTTGCATATTGGTGACCGAAATGCTCAAGTGGCATGTGCGGTTTTATTGAAAAGCTATTCATCCAAGGCCTCGTACATTTTGGATGGATATCTTGCAGCTATACTTCCGTTGTGGGAAGAGCATACAAGTAGTGAACGTGTAGCCCTCCAGTTATACTTAGCAGAAATTGTTTCTCTTATTTGTGAGAGCATTGCAACATCTTCTTGGGCAAGTAAAAAGAAGTCAGCCCAGGCCATTCCCAAACTCGGTGAAGTTTTGCGTGAATCTCTGGCTTCTTACTATAATGTCTTGCTCAAATCTCTTATGAAAGAGATTCCTGGTCGGTTATGGGAGGGAAAGGAAGCTCTATTGTATTCAATTGCTGCACTTTCTGTGCCTTGTCATAAAGAAATTTCAACTGATGATCCTAATACTCGAATGAAGTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ecm29

Protein Analysis

299

Amino Acids

32.91

Weight (kDa)

9.4

Isoelectric Point (pI)

49.6

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0003406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G25800 AT5G25800
fragaria_vesca	FvH4_2g15020 FvH4_2g15020 FvH4_4g14244
malus_domestica	MD05G1011300.v1.1 MD10G1011100.v1.1
prunus_persica	Prupe.8G016300_v2.0.a1 Prupe.8G016300_v2.0.a1 Prupe.8G016300_v2.0.a1
pyrus_communis	pycom05g00660 pycom10g00710
rosa_chinensis	RchiOBHm_Chr6g0277571
rosa_laevigata	RLG00000013291
rosa_multiflora	Rmu_co8201914.1_g000001
rosa_roxburghii	Rroxscaffold_3G00239400 Rroxscaffold_3G00248790 Rroxscaffold_4G00320900 Rroxscaffold_4G00323660 Rroxscaffold_4G00323670 Rroxscaffold_5G00362250 Rroxscaffold_6G00389120 Rroxscaffold_6G00389130 Rroxscaffold_6G00389140 Rroxscaffold_6G00394340 Rroxscaffold_6G00401850 Rroxscaffold_6G00404000 Rroxscaffold_6G00409440 Rroxscaffold_7G00191200
rosa_rugosa	Rorug06G0109700
rosa_samantha	Rh4CG232400 Rh6AG220200 Rh6BG224100 Rh6CG226400 Rh6DG217000
rosa_wichuraiana	Rw6G019280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	16
Acc36I	ACCTGC	1 cut(s)	16
AccB1I	GGYRCC	1 cut(s)	4
AciI	CCGC	5 cut(s)	184, 215, 302, 308, 509
AclWI	GGATC	1 cut(s)	869
AcoI	YGGCCR	1 cut(s)	441
AcsI	RAATTY	3 cut(s)	69, 135, 861
AfaI	GTAC	4 cut(s)	254, 300, 414, 545
AfiI	CCNNNNNNNGG	1 cut(s)	716
AflIII	ACRYGT	1 cut(s)	607
AgeI	ACCGGT	1 cut(s)	277
AgsI	TTSAA	5 cut(s)	194, 268, 520, 828, 867
AjiI	CACGTC	1 cut(s)	30
AjnI	CCWGG	3 cut(s)	321, 699, 787
AluBI	AGCT	9 cut(s)	14, 197, 207, 232, 335, 470, 525, 569, 815
AluI	AGCT	9 cut(s)	14, 197, 207, 232, 335, 470, 525, 569, 815
Alw26I	GTCTC	1 cut(s)	305
AlwI	GGATC	1 cut(s)	869
Ama87I	CYCGRG	1 cut(s)	151
AoxI	GGCC	4 cut(s)	143, 441, 537, 702
ApeKI	GCWGC	6 cut(s)	11, 232, 377, 467, 566, 833
ApoI	RAATTY	3 cut(s)	69, 135, 861
AsiGI	ACCGGT	1 cut(s)	277
AspLEI	GCGC	2 cut(s)	36, 183
AspS9I	GGNCC	1 cut(s)	143
AsuHPI	GGTGA	4 cut(s)	42, 163, 494, 731
AvaI	CYCGRG	1 cut(s)	151
BaeI	ACNNNNGTAYC	2 cut(s)	282, 315
BanI	GGYRCC	1 cut(s)	4
BbsI	GAAGAC	1 cut(s)	324
BbvI	GCAGC	6 cut(s)	23, 219, 364, 479, 578, 820
BccI	CCATC	2 cut(s)	255, 548
BcgI	CGANNNNNNTGC	4 cut(s)	389, 423, 446, 480
BciT130I	CCWGG	3 cut(s)	323, 701, 789
BcoDI	GTCTC	1 cut(s)	305
BfaI	CTAG	1 cut(s)	261
BfmI	CTRYAG	2 cut(s)	9, 465
BfoI	RGCGCY	2 cut(s)	37, 184
BfuAI	ACCTGC	1 cut(s)	16
BisI	GCNGC	7 cut(s)	12, 184, 233, 378, 468, 567, 834
BlsI	GCNGC	7 cut(s)	13, 185, 234, 379, 469, 568, 835
BmcAI	AGTACT	1 cut(s)	414
Bme1390I	CCNGG	3 cut(s)	323, 701, 789
BmeT110I	CYCGRG	1 cut(s)	151
BmgBI	CACGTC	1 cut(s)	30
BmgT120I	GGNCC	1 cut(s)	143
BmiI	GGNNCC	2 cut(s)	6, 144
BmrFI	CCNGG	3 cut(s)	323, 701, 789
BmsI	GCATC	3 cut(s)	195, 389, 391
BpiI	GAAGAC	1 cut(s)	324
BpmI	CTGGAG	2 cut(s)	183, 602
BpuEI	CTTGAG	1 cut(s)	480
Bsa29I	ATCGAT	1 cut(s)	456
BsaBI	GATNNNNATC	1 cut(s)	558
BsaI	GGTCTC	1 cut(s)	305
BsaJI	CCNNGG	2 cut(s)	534, 699
BsaWI	WCCGGW	2 cut(s)	277, 353
BsaXI	ACNNNNNCTCC	2 cut(s)	264, 294
Bsc4I	CCNNNNNNNGG	1 cut(s)	716
Bse118I	RCCGGY	1 cut(s)	277
Bse1I	ACTGG	1 cut(s)	619
Bse3DI	GCAATG	1 cut(s)	660
Bse8I	GATNNNNATC	1 cut(s)	558
BseBI	CCWGG	3 cut(s)	323, 701, 789
BseCI	ATCGAT	1 cut(s)	456
BseDI	CCNNGG	2 cut(s)	534, 699
BseGI	GGATG	3 cut(s)	186, 530, 559
BseJI	GATNNNNATC	1 cut(s)	558
BseLI	CCNNNNNNNGG	1 cut(s)	716
BseMI	GCAATG	1 cut(s)	660
BseNI	ACTGG	1 cut(s)	619
BseX3I	CGGCCG	1 cut(s)	441
BseXI	GCAGC	6 cut(s)	23, 219, 364, 479, 578, 820
BsgI	GTGCAG	2 cut(s)	429, 819
Bsh1285I	CGRYCG	1 cut(s)	444
BshFI	GGCC	4 cut(s)	145, 443, 539, 704
BshNI	GGYRCC	1 cut(s)	4
BshTI	ACCGGT	1 cut(s)	277
BshVI	ATCGAT	1 cut(s)	456
BsiEI	CGRYCG	1 cut(s)	444
BsiHKCI	CYCGRG	1 cut(s)	151
BsiSI	CCGG	2 cut(s)	278, 354
BslI	CCNNNNNNNGG	1 cut(s)	716
BsmAI	GTCTC	1 cut(s)	305
BsnI	GGCC	4 cut(s)	145, 443, 539, 704
Bso31I	GGTCTC	1 cut(s)	305
BsoBI	CYCGRG	1 cut(s)	151
Bsp143I	GATC	2 cut(s)	453, 874
BspACI	CCGC	5 cut(s)	184, 215, 302, 308, 509
BspANI	GGCC	4 cut(s)	145, 443, 539, 704
BspDI	ATCGAT	1 cut(s)	456
BspHI	TCATGA	1 cut(s)	24
BspLI	GGNNCC	2 cut(s)	6, 144
BspMAI	CTGCAG	2 cut(s)	13, 469
BspMI	ACCTGC	1 cut(s)	16
BspPI	GGATC	1 cut(s)	869
BspQI	GCTCTTC	1 cut(s)	582
BspT107I	GGYRCC	1 cut(s)	4
BspTNI	GGTCTC	1 cut(s)	305
BsrDI	GCAATG	1 cut(s)	660
BsrFI	RCCGGY	1 cut(s)	277
BsrI	ACTGG	1 cut(s)	619
BssAI	RCCGGY	1 cut(s)	277
BssECI	CCNNGG	2 cut(s)	534, 699
BssMI	GATC	2 cut(s)	453, 874
BssT1I	CCWWGG	1 cut(s)	534
Bst2UI	CCWGG	3 cut(s)	323, 701, 789
Bst6I	CTCTTC	1 cut(s)	582
BstC8I	GCNNGC	3 cut(s)	205, 306, 333
BstDEI	CTNAG	2 cut(s)	15, 628
BstEII	GGTNACC	1 cut(s)	482
BstF5I	GGATG	3 cut(s)	186, 530, 559
BstH2I	RGCGCY	2 cut(s)	37, 184
BstHHI	GCGC	2 cut(s)	36, 183
BstKTI	GATC	2 cut(s)	456, 877
BstMAI	GTCTC	1 cut(s)	305
BstMBI	GATC	2 cut(s)	453, 874
BstMCI	CGRYCG	1 cut(s)	444
BstMWI	GCNNNNNNNGC	3 cut(s)	11, 341, 500
BstNI	CCWGG	3 cut(s)	323, 701, 789
BstNSI	RCATGY	3 cut(s)	308, 408, 507
BstPI	GGTNACC	1 cut(s)	482
BstSCI	CCNGG	3 cut(s)	321, 699, 787
BstSFI	CTRYAG	2 cut(s)	9, 465
BstV1I	GCAGC	6 cut(s)	23, 219, 364, 479, 578, 820
BstV2I	GAAGAC	1 cut(s)	324
BstZI	CGGCCG	1 cut(s)	441
Bsu15I	ATCGAT	1 cut(s)	456
BsuRI	GGCC	4 cut(s)	145, 443, 539, 704
BsuTUI	ATCGAT	1 cut(s)	456
BtrI	CACGTC	1 cut(s)	30
BtsCI	GGATG	3 cut(s)	186, 530, 559
BtsI	GCAGTG	1 cut(s)	462
BtsIMutI	CAGTG	1 cut(s)	462
BveI	ACCTGC	1 cut(s)	16
Cac8I	GCNNGC	3 cut(s)	205, 306, 333
CciI	TCATGA	1 cut(s)	24
CfoI	GCGC	2 cut(s)	36, 183
Cfr10I	RCCGGY	1 cut(s)	277
Cfr13I	GGNCC	1 cut(s)	143
ClaI	ATCGAT	1 cut(s)	456
CsiI	ACCWGGT	1 cut(s)	321
Csp6I	GTAC	4 cut(s)	253, 299, 413, 544
CspAI	ACCGGT	1 cut(s)	277
CviAII	CATG	4 cut(s)	25, 305, 405, 504
CviQI	GTAC	4 cut(s)	253, 299, 413, 544
DdeI	CTNAG	2 cut(s)	15, 628
DpnI	GATC	2 cut(s)	455, 876
DpnII	GATC	2 cut(s)	453, 874
DraI	TTTAAA	1 cut(s)	420
EaeI	YGGCCR	1 cut(s)	441
EagI	CGGCCG	1 cut(s)	441
Eam1104I	CTCTTC	1 cut(s)	582
EarI	CTCTTC	1 cut(s)	582
EclXI	CGGCCG	1 cut(s)	441
Eco130I	CCWWGG	1 cut(s)	534
Eco147I	AGGCCT	1 cut(s)	539
Eco31I	GGTCTC	1 cut(s)	305
Eco32I	GATATC	1 cut(s)	560
Eco52I	CGGCCG	1 cut(s)	441
Eco88I	CYCGRG	1 cut(s)	151
Eco91I	GGTNACC	1 cut(s)	482
EcoO65I	GGTNACC	1 cut(s)	482
EcoRII	CCWGG	3 cut(s)	321, 699, 787
EcoRV	GATATC	1 cut(s)	560
EcoT14I	CCWWGG	1 cut(s)	534
EcoT22I	ATGCAT	1 cut(s)	406
ErhI	CCWWGG	1 cut(s)	534
FaeI	CATG	4 cut(s)	28, 308, 408, 507
FatI	CATG	4 cut(s)	24, 304, 404, 503
FauI	CCCGC	1 cut(s)	222
FauNDI	CATATG	1 cut(s)	295
Fnu4HI	GCNGC	7 cut(s)	12, 184, 233, 378, 468, 567, 834
FokI	GGATG	3 cut(s)	173, 517, 566
Fsp4HI	GCNGC	7 cut(s)	12, 184, 233, 378, 468, 567, 834
FspBI	CTAG	1 cut(s)	261
GlaI	GCGC	2 cut(s)	35, 182
GluI	GCNGC	7 cut(s)	12, 184, 233, 378, 468, 567, 834
GsuI	CTGGAG	2 cut(s)	183, 602
HaeII	RGCGCY	2 cut(s)	37, 184
HaeIII	GGCC	4 cut(s)	145, 443, 539, 704
HapII	CCGG	2 cut(s)	278, 354
HhaI	GCGC	2 cut(s)	36, 183
Hin1II	CATG	4 cut(s)	28, 308, 408, 507
Hin6I	GCGC	2 cut(s)	34, 181
HinP1I	GCGC	2 cut(s)	34, 181
HinfI	GANTC	3 cut(s)	47, 734, 784
HpaII	CCGG	2 cut(s)	278, 354
HphI	GGTGA	4 cut(s)	42, 163, 494, 731
Hpy166II	GTNNAC	1 cut(s)	605
Hpy188III	TCNNGA	2 cut(s)	25, 153
Hpy8I	GTNNAC	1 cut(s)	605
HpyAV	CCTTC	2 cut(s)	200, 356
HpyCH4IV	ACGT	2 cut(s)	29, 607
HpyF10VI	GCNNNNNNNGC	3 cut(s)	11, 341, 500
HpyF3I	CTNAG	2 cut(s)	15, 628
HpySE526I	ACGT	2 cut(s)	29, 607
Hsp92II	CATG	4 cut(s)	28, 308, 408, 507
HspAI	GCGC	2 cut(s)	34, 181
Kzo9I	GATC	2 cut(s)	453, 874
LguI	GCTCTTC	1 cut(s)	582
LmnI	GCTCC	1 cut(s)	202
Lsp1109I	GCAGC	6 cut(s)	23, 219, 364, 479, 578, 820
LweI	GCATC	3 cut(s)	195, 389, 391
MabI	ACCWGGT	1 cut(s)	321
MaeI	CTAG	1 cut(s)	261
MaeII	ACGT	2 cut(s)	29, 607
MaeIII	GTNAC	2 cut(s)	158, 482
MalI	GATC	2 cut(s)	455, 876
MboI	GATC	2 cut(s)	453, 874
MboII	GAAGA	3 cut(s)	329, 599, 663
MfeI	CAATTG	1 cut(s)	828
MluCI	AATT	5 cut(s)	69, 135, 636, 828, 861
MnlI	CCTC	7 cut(s)	12, 149, 334, 446, 550, 626, 796
Mph1103I	ATGCAT	1 cut(s)	406
MseI	TTAA	1 cut(s)	419
MslI	CAYNNNNRTG	1 cut(s)	480
MspI	CCGG	2 cut(s)	278, 354
MspR9I	CCNGG	3 cut(s)	323, 701, 789
MunI	CAATTG	1 cut(s)	828
MvaI	CCWGG	3 cut(s)	323, 701, 789
MwoI	GCNNNNNNNGC	3 cut(s)	11, 341, 500
NdeI	CATATG	1 cut(s)	295
NdeII	GATC	2 cut(s)	453, 874
NlaIII	CATG	4 cut(s)	28, 308, 408, 507
NlaIV	GGNNCC	2 cut(s)	6, 144
NmeAIII	GCCGAG	1 cut(s)	419
NmuCI	GTSAC	2 cut(s)	158, 482
NsiI	ATGCAT	1 cut(s)	406
NspI	RCATGY	3 cut(s)	308, 408, 507
PaeI	GCATGC	1 cut(s)	308
PaeR7I	CTCGAG	1 cut(s)	151
PagI	TCATGA	1 cut(s)	24
PaqCI	CACCTGC	1 cut(s)	16
PceI	AGGCCT	1 cut(s)	539
PciSI	GCTCTTC	1 cut(s)	582
PfeI	GAWTC	3 cut(s)	47, 734, 784
PinAI	ACCGGT	1 cut(s)	277
PkrI	GCNGC	7 cut(s)	13, 185, 234, 379, 469, 568, 835
Psp6I	CCWGG	3 cut(s)	321, 699, 787
PspEI	GGTNACC	1 cut(s)	482
PspGI	CCWGG	3 cut(s)	321, 699, 787
PspN4I	GGNNCC	2 cut(s)	6, 144
PspPI	GGNCC	1 cut(s)	143
PstI	CTGCAG	2 cut(s)	13, 469
RsaI	GTAC	4 cut(s)	254, 300, 414, 545
RsaNI	GTAC	4 cut(s)	253, 299, 413, 544
RseI	CAYNNNNRTG	1 cut(s)	480
SapI	GCTCTTC	1 cut(s)	582
SaqAI	TTAA	1 cut(s)	419
SatI	GCNGC	7 cut(s)	12, 184, 233, 378, 468, 567, 834
Sau3AI	GATC	2 cut(s)	453, 874
Sau96I	GGNCC	1 cut(s)	143
ScaI	AGTACT	1 cut(s)	414
ScrFI	CCNGG	3 cut(s)	323, 701, 789
SexAI	ACCWGGT	1 cut(s)	321
SfaNI	GCATC	3 cut(s)	195, 389, 391
SfcI	CTRYAG	2 cut(s)	9, 465
Sfr274I	CTCGAG	1 cut(s)	151
SlaI	CTCGAG	1 cut(s)	151
SmiMI	CAYNNNNRTG	1 cut(s)	480
SmlI	CTYRAG	2 cut(s)	151, 495
SmoI	CTYRAG	2 cut(s)	151, 495
SphI	GCATGC	1 cut(s)	308
Sse9I	AATT	5 cut(s)	69, 135, 636, 828, 861
SseBI	AGGCCT	1 cut(s)	539
SsiI	CCGC	5 cut(s)	184, 215, 302, 308, 509
SspMI	CTAG	1 cut(s)	261
StuI	AGGCCT	1 cut(s)	539
StyD4I	CCNGG	3 cut(s)	321, 699, 787
StyI	CCWWGG	1 cut(s)	534
TaiI	ACGT	2 cut(s)	32, 610
TaqI	TCGA	3 cut(s)	152, 456, 886
TaqII	GACCGA	2 cut(s)	329, 501
TasI	AATT	5 cut(s)	69, 135, 636, 828, 861
TatI	WGTACW	1 cut(s)	412
TauI	GCSGC	1 cut(s)	186
TfiI	GAWTC	3 cut(s)	47, 734, 784
Tru1I	TTAA	1 cut(s)	419
Tru9I	TTAA	1 cut(s)	419
TscAI	CASTG	1 cut(s)	469
TseFI	GTSAC	2 cut(s)	158, 482
TseI	GCWGC	6 cut(s)	11, 232, 377, 467, 566, 833
Tsp45I	GTSAC	2 cut(s)	158, 482
TspDTI	ATGAA	2 cut(s)	519, 791
TspGWI	ACGGA	1 cut(s)	567
TspRI	CASTG	1 cut(s)	469
XapI	RAATTY	3 cut(s)	69, 135, 861
XceI	RCATGY	3 cut(s)	308, 408, 507
XhoI	CTCGAG	1 cut(s)	151
XspI	CTAG	1 cut(s)	261
ZrmI	AGTACT	1 cut(s)	414
Zsp2I	ATGCAT	1 cut(s)	406

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