Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0009534

Physical Location & Seq

Genomic Coordinates Reverse (-)

11894551 .. 11898502

Gene Structure 3952 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG136200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGGCCATAGCCGCCGCCATTTCGGTGCCTCTCACATCCCCAACTAGCCGATCACTCACCTCCTTCCTTCCTCATCAATCGTCTCCTTCTCCTATTCTCCAATTCAACTCTCTCAGAAAAACCGTTAGCCCTCGTTTACGCCTCGTGGCGGCTGCTTCAATGAGCGTCGAAGCAGCCGAAAAGGCGTCGCCGGCGTCTTTTCTGGACCGGAGAGAGGCCGGAATCCTTCACTTCGTCAAGTACCACGGCCTCGGCAACGACTTCATCCTGGTTGATAATAGGGATTCTTCGGAGCCTAAGGTTACTCCGGAGCAAGCAGTGAGGCTATGTGATCGGAACTTCGGGATTGGCGCCGATGGAGTCATCTTCGCGCTTCCTGGCATCAATGGCACTGATTATACTATGAGGATTTTCAATTCCGATGGGAGCGAGCCGGAGATGTGTGGTAATGGAGTCCGGTGCTTTGCGAGATTCATCACAGAGCTTGAGAATCTACATGGGAACCAACGCTTTACAGTACATACTGGTGCTGGTCTAATTGTTCCAGAAATTGTGGATGATGGGAAGGTTAGAGTTGATATGGGGGAGCCAATTCTTAAAGCATCAGATGTACCCACTAAATTACCTCCAAACAAAGATCATTCTGTTGTTAAGGCAGGTTTGGATGTTGATGGAGTAACCTGGAATGTAACTTGTGTCAGTATGGGAAATCCTCATTGTATAACTTTTGGTACAGAAGGAGGCCAGGTAACTATTAGTAGTATAACTTCAGACCTTACAATTCACTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006520 GO:0006553 GO:0006807 GO:0008150 GO:0008152 GO:0008652 GO:0008837 GO:0009058 GO:0009066 GO:0009067 GO:0009085 GO:0009089 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016053 GO:0016853 GO:0016854 GO:0016855 GO:0019752 GO:0036361 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043648 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046394 GO:0046451 GO:0047661 GO:0071704 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607

KEGG Pathways

Metabolic & Signaling

ko00300 ko01100 ko01110 ko01120 ko01130 ko01230 map00300 map01100 map01110 map01120 map01130 map01230

Pfam Domains

Protein Families

DAP_epimerase

Protein Analysis

263

Amino Acids

28.22

Weight (kDa)

5.89

Isoelectric Point (pI)

37.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DAP_epimerase	PF01678	78 - 198	1.6e-34	Diaminopimelate epimerase

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: OG0009534)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53580
fragaria_vesca	FvH4_6g14490
malus_domestica	MD04G1119400.v1.1 MD07G1084600.v1.1 MD07G1085800.v1.1 MD12G1136700.v1.1
prunus_persica	Prupe.6G249100_v2.0.a1 Prupe.6G249100_v2.0.a1
pyrus_communis	pycom04g10870 pycom07g06870 pycom12g13120
rosa_chinensis	RchiOBHm_Chr3g0467571
rosa_laevigata	RLG00000024489
rosa_multiflora	Rmu_sc0000679.1_g000030 Rmu_sc0011632.1_g000016
rosa_roxburghii	Rroxscaffold_6G00413580
rosa_rugosa	Rorug03G0088200
rosa_samantha	Rh3AG136200 Rh3BG158100 Rh3CG157900 Rh3DG158700
rosa_wichuraiana	Rw3G012930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	647
AccB1I	GGYRCC	2 cut(s)	25, 350
AccII	CGCG	1 cut(s)	371
AccIII	TCCGGA	1 cut(s)	307
AciI	CCGC	3 cut(s)	12, 15, 149
AcoI	YGGCCR	1 cut(s)	3
AcuI	CTGAAG	1 cut(s)	753
AcyI	GRCGYC	3 cut(s)	185, 194, 351
AfaI	GTAC	4 cut(s)	242, 519, 612, 733
AfiI	CCNNNNNNNGG	2 cut(s)	148, 214
AgsI	TTSAA	3 cut(s)	106, 159, 415
AjnI	CCWGG	4 cut(s)	267, 376, 680, 744
AluBI	AGCT	1 cut(s)	484
AluI	AGCT	1 cut(s)	484
Alw26I	GTCTC	1 cut(s)	87
Aor13HI	TCCGGA	1 cut(s)	307
AoxI	GGCC	4 cut(s)	3, 216, 247, 742
ApeKI	GCWGC	2 cut(s)	152, 173
AspLEI	GCGC	2 cut(s)	353, 373
AspS9I	GGNCC	1 cut(s)	205
AsuHPI	GGTGA	1 cut(s)	49
AvaII	GGWCC	1 cut(s)	205
AxyI	CCTNAGG	1 cut(s)	297
BalI	TGGCCA	1 cut(s)	5
BanI	GGYRCC	2 cut(s)	25, 350
BarI	GAAGNNNNNNTAC	2 cut(s)	751, 783
BauI	CACGAG	1 cut(s)	143
BbvI	GCAGC	2 cut(s)	139, 185
BccI	CCATC	4 cut(s)	350, 416, 554, 665
BceAI	ACGGC	1 cut(s)	262
BciT130I	CCWGG	4 cut(s)	269, 378, 682, 746
BcoDI	GTCTC	1 cut(s)	87
BfaI	CTAG	1 cut(s)	45
BfoI	RGCGCY	1 cut(s)	354
BfuAI	ACCTGC	1 cut(s)	647
BglI	GCCNNNNNGGC	1 cut(s)	182
BisI	GCNGC	5 cut(s)	12, 15, 150, 153, 174
BlsI	GCNGC	5 cut(s)	13, 16, 151, 154, 175
Bme1390I	CCNGG	4 cut(s)	269, 378, 682, 746
Bme18I	GGWCC	1 cut(s)	205
BmgT120I	GGNCC	1 cut(s)	205
BmiI	GGNNCC	5 cut(s)	27, 294, 352, 503, 588
BmrFI	CCNGG	4 cut(s)	269, 378, 682, 746
BmsI	GCATC	2 cut(s)	390, 611
BpuEI	CTTGAG	1 cut(s)	506
BsaHI	GRCGYC	3 cut(s)	185, 194, 351
BsaJI	CCNNGG	2 cut(s)	244, 250
BsaWI	WCCGGW	3 cut(s)	207, 307, 456
BsaXI	ACNNNNNCTCC	2 cut(s)	732, 762
Bsc4I	CCNNNNNNNGG	2 cut(s)	148, 214
Bse118I	RCCGGY	1 cut(s)	190
Bse1I	ACTGG	1 cut(s)	529
Bse21I	CCTNAGG	1 cut(s)	297
BseAI	TCCGGA	1 cut(s)	307
BseBI	CCWGG	4 cut(s)	269, 378, 682, 746
BseDI	CCNNGG	2 cut(s)	244, 250
BseGI	GGATG	4 cut(s)	35, 264, 562, 670
BseLI	CCNNNNNNNGG	2 cut(s)	148, 214
BseMII	CTCAG	1 cut(s)	127
BseNI	ACTGG	1 cut(s)	529
BseXI	GCAGC	2 cut(s)	139, 185
Bsh1236I	CGCG	1 cut(s)	371
BshFI	GGCC	4 cut(s)	5, 218, 249, 744
BshNI	GGYRCC	2 cut(s)	25, 350
BsiSI	CCGG	6 cut(s)	191, 208, 219, 308, 434, 457
BslI	CCNNNNNNNGG	2 cut(s)	148, 214
BsmAI	GTCTC	1 cut(s)	87
BsmBI	CGTCTC	1 cut(s)	87
BsnI	GGCC	4 cut(s)	5, 218, 249, 744
Bsp13I	TCCGGA	1 cut(s)	307
Bsp143I	GATC	3 cut(s)	50, 331, 637
BspACI	CCGC	3 cut(s)	12, 15, 149
BspANI	GGCC	4 cut(s)	5, 218, 249, 744
BspCNI	CTCAG	1 cut(s)	126
BspEI	TCCGGA	1 cut(s)	307
BspFNI	CGCG	1 cut(s)	371
BspLI	GGNNCC	5 cut(s)	27, 294, 352, 503, 588
BspMI	ACCTGC	1 cut(s)	647
BspT107I	GGYRCC	2 cut(s)	25, 350
BsrFI	RCCGGY	1 cut(s)	190
BsrI	ACTGG	1 cut(s)	529
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	2 cut(s)	244, 250
BssMI	GATC	3 cut(s)	50, 331, 637
BssNI	GRCGYC	3 cut(s)	185, 194, 351
BssSI	CACGAG	1 cut(s)	143
Bst2BI	CACGAG	1 cut(s)	143
Bst2UI	CCWGG	4 cut(s)	269, 378, 682, 746
Bst4CI	ACNGT	2 cut(s)	124, 517
BstACI	GRCGYC	3 cut(s)	185, 194, 351
BstC8I	GCNNGC	3 cut(s)	192, 315, 431
BstDEI	CTNAG	2 cut(s)	113, 297
BstDSI	CCRYGG	1 cut(s)	244
BstF5I	GGATG	4 cut(s)	35, 264, 562, 670
BstFNI	CGCG	1 cut(s)	371
BstH2I	RGCGCY	1 cut(s)	354
BstHHI	GCGC	2 cut(s)	353, 373
BstKTI	GATC	3 cut(s)	53, 334, 640
BstMAI	GTCTC	1 cut(s)	87
BstMBI	GATC	3 cut(s)	50, 331, 637
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 182, 191, 387
BstNI	CCWGG	4 cut(s)	269, 378, 682, 746
BstSCI	CCNGG	4 cut(s)	267, 376, 680, 744
BstUI	CGCG	1 cut(s)	371
BstV1I	GCAGC	2 cut(s)	139, 185
Bsu36I	CCTNAGG	1 cut(s)	297
BsuRI	GGCC	4 cut(s)	5, 218, 249, 744
BtgI	CCRYGG	1 cut(s)	244
BtsCI	GGATG	4 cut(s)	35, 264, 562, 670
BtsI	GCAGTG	1 cut(s)	324
BtsIMutI	CAGTG	2 cut(s)	324, 390
BveI	ACCTGC	1 cut(s)	647
Cac8I	GCNNGC	3 cut(s)	192, 315, 431
CfoI	GCGC	2 cut(s)	353, 373
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	205
CseI	GACGC	3 cut(s)	154, 174, 183
Csp6I	GTAC	4 cut(s)	241, 518, 611, 732
CviAII	CATG	1 cut(s)	497
CviQI	GTAC	4 cut(s)	241, 518, 611, 732
DdeI	CTNAG	2 cut(s)	113, 297
DinI	GGCGCC	1 cut(s)	352
DpnI	GATC	3 cut(s)	52, 333, 639
DpnII	GATC	3 cut(s)	50, 331, 637
EaeI	YGGCCR	1 cut(s)	3
Eco47I	GGWCC	1 cut(s)	205
Eco57I	CTGAAG	1 cut(s)	753
Eco81I	CCTNAGG	1 cut(s)	297
EcoRII	CCWGG	4 cut(s)	267, 376, 680, 744
EgeI	GGCGCC	1 cut(s)	352
EheI	GGCGCC	1 cut(s)	352
Esp3I	CGTCTC	1 cut(s)	87
FaeI	CATG	1 cut(s)	500
FatI	CATG	1 cut(s)	496
Fnu4HI	GCNGC	5 cut(s)	12, 15, 150, 153, 174
FokI	GGATG	4 cut(s)	22, 251, 569, 677
Fsp4HI	GCNGC	5 cut(s)	12, 15, 150, 153, 174
FspBI	CTAG	1 cut(s)	45
GlaI	GCGC	2 cut(s)	352, 372
GluI	GCNGC	5 cut(s)	12, 15, 150, 153, 174
HaeII	RGCGCY	1 cut(s)	354
HaeIII	GGCC	4 cut(s)	5, 218, 249, 744
HapII	CCGG	6 cut(s)	191, 208, 219, 308, 434, 457
HgaI	GACGC	3 cut(s)	154, 174, 183
HhaI	GCGC	2 cut(s)	353, 373
Hin1I	GRCGYC	3 cut(s)	185, 194, 351
Hin1II	CATG	1 cut(s)	500
Hin6I	GCGC	2 cut(s)	351, 371
HinP1I	GCGC	2 cut(s)	351, 371
HinfI	GANTC	6 cut(s)	222, 284, 360, 453, 471, 490
HpaII	CCGG	6 cut(s)	191, 208, 219, 308, 434, 457
HphI	GGTGA	1 cut(s)	49
Hpy166II	GTNNAC	1 cut(s)	137
Hpy188I	TCNGA	6 cut(s)	116, 292, 336, 421, 607, 772
Hpy188III	TCNNGA	4 cut(s)	203, 308, 343, 545
Hpy8I	GTNNAC	1 cut(s)	137
Hpy99I	CGWCG	2 cut(s)	170, 190
HpyAV	CCTTC	6 cut(s)	73, 77, 96, 236, 559, 731
HpyCH4III	ACNGT	2 cut(s)	124, 517
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 182, 191, 387
HpyF3I	CTNAG	2 cut(s)	113, 297
Hsp92I	GRCGYC	3 cut(s)	185, 194, 351
Hsp92II	CATG	1 cut(s)	500
HspAI	GCGC	2 cut(s)	351, 371
KasI	GGCGCC	1 cut(s)	350
Kpn2I	TCCGGA	1 cut(s)	307
KroI	GCCGGC	1 cut(s)	190
KroNI	GCCGGC	1 cut(s)	192
Kzo9I	GATC	3 cut(s)	50, 331, 637
LmnI	GCTCC	4 cut(s)	292, 310, 426, 586
Lsp1109I	GCAGC	2 cut(s)	139, 185
LweI	GCATC	2 cut(s)	390, 611
MaeI	CTAG	1 cut(s)	45
MaeIII	GTNAC	4 cut(s)	301, 676, 688, 748
MalI	GATC	3 cut(s)	52, 333, 639
MboI	GATC	3 cut(s)	50, 331, 637
MboII	GAAGA	2 cut(s)	279, 358
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	7 cut(s)	101, 415, 537, 549, 591, 620, 780
MluNI	TGGCCA	1 cut(s)	5
Mly113I	GGCGCC	1 cut(s)	351
MlyI	GAGTC	2 cut(s)	369, 462
Mox20I	TGGCCA	1 cut(s)	5
MreI	CGCCGGCG	1 cut(s)	190
MroI	TCCGGA	1 cut(s)	307
MroNI	GCCGGC	1 cut(s)	190
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	597, 651
MslI	CAYNNNNRTG	2 cut(s)	23, 525
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	6 cut(s)	191, 208, 219, 308, 434, 457
MspR9I	CCNGG	4 cut(s)	269, 378, 682, 746
MvaI	CCWGG	4 cut(s)	269, 378, 682, 746
MvnI	CGCG	1 cut(s)	371
MwoI	GCNNNNNNNGC	4 cut(s)	11, 182, 191, 387
NaeI	GCCGGC	1 cut(s)	192
NarI	GGCGCC	1 cut(s)	351
NdeII	GATC	3 cut(s)	50, 331, 637
NgoMIV	GCCGGC	1 cut(s)	190
NlaIII	CATG	1 cut(s)	500
NlaIV	GGNNCC	5 cut(s)	27, 294, 352, 503, 588
NmeAIII	GCCGAG	1 cut(s)	231
PcsI	WCGNNNNNNNCGW	1 cut(s)	174
PdiI	GCCGGC	1 cut(s)	192
PfeI	GAWTC	4 cut(s)	222, 284, 471, 490
PkrI	GCNGC	5 cut(s)	13, 16, 151, 154, 175
PleI	GAGTC	2 cut(s)	368, 461
PluTI	GGCGCC	1 cut(s)	354
PpsI	GAGTC	2 cut(s)	368, 461
Psp6I	CCWGG	4 cut(s)	267, 376, 680, 744
PspGI	CCWGG	4 cut(s)	267, 376, 680, 744
PspN4I	GGNNCC	5 cut(s)	27, 294, 352, 503, 588
PspPI	GGNCC	1 cut(s)	205
RsaI	GTAC	4 cut(s)	242, 519, 612, 733
RsaNI	GTAC	4 cut(s)	241, 518, 611, 732
RseI	CAYNNNNRTG	2 cut(s)	23, 525
SaqAI	TTAA	2 cut(s)	597, 651
SatI	GCNGC	5 cut(s)	12, 15, 150, 153, 174
Sau3AI	GATC	3 cut(s)	50, 331, 637
Sau96I	GGNCC	1 cut(s)	205
SchI	GAGTC	2 cut(s)	369, 462
ScrFI	CCNGG	4 cut(s)	269, 378, 682, 746
SetI	ASST	9 cut(s)	62, 303, 486, 570, 628, 661, 683, 750, 777
SfaNI	GCATC	2 cut(s)	390, 611
SfoI	GGCGCC	1 cut(s)	352
SgrAI	CRCCGGYG	1 cut(s)	190
SinI	GGWCC	1 cut(s)	205
SmiMI	CAYNNNNRTG	2 cut(s)	23, 525
SmlI	CTYRAG	1 cut(s)	485
SmoI	CTYRAG	1 cut(s)	485
Sse9I	AATT	7 cut(s)	101, 415, 537, 549, 591, 620, 780
SsiI	CCGC	3 cut(s)	12, 15, 149
SspDI	GGCGCC	1 cut(s)	350
SspMI	CTAG	1 cut(s)	45
StyD4I	CCNGG	4 cut(s)	267, 376, 680, 744
TaaI	ACNGT	2 cut(s)	124, 517
TaqI	TCGA	1 cut(s)	168
TasI	AATT	7 cut(s)	101, 415, 537, 549, 591, 620, 780
TatI	WGTACW	1 cut(s)	517
TauI	GCSGC	3 cut(s)	14, 17, 152
TfiI	GAWTC	4 cut(s)	222, 284, 471, 490
Tru1I	TTAA	2 cut(s)	597, 651
Tru9I	TTAA	2 cut(s)	597, 651
TscAI	CASTG	2 cut(s)	324, 397
TseI	GCWGC	2 cut(s)	152, 173
TspDTI	ATGAA	2 cut(s)	253, 463
TspRI	CASTG	2 cut(s)	324, 397
VpaK11BI	GGWCC	1 cut(s)	205
XspI	CTAG	1 cut(s)	45

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