Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0009534

Physical Location & Seq

Genomic Coordinates Reverse (-)

12705256 .. 12708869

Gene Structure 3614 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G012930.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 924 bp

ATGAGCGTCGAAGCAGCCGAAAAGGCGTCGCCGGCGTCTTTTCTGGACCGGAGAGAGGCCGGAATCCTTCACTTCGTCAAGTACCACGGCCTCGGCAACGACTTCATCCTGGTTGATAATAGGGATTCTTCGGAGCCTAAGGTTACTCCGGAGCAAGCAGTGAGGCTATGTGATCGGAACTTCGGGATTGGCGCCGATGGAGTCATCTTCGCGCTTCCTGGCATCAATGGCACTGATTATACTATGAGGATTTTCAATTCCGATGGGAGCGAGCCGGAGATGTGTGGTAATGGAGTCCGGTGCTTTGCGAGATTCATCACAGAGCTTGAGAATCTACATGGGAACCAACGCTTTACAGTACATACTGGTGCTGGTCTAATTGTTCCAGAAATTGTGGATGATGGGAAGGTTAGAGTTGATATGGGGGAGCCAATTCTTAAAGCATCAGATGTACCCACTAAATTACCTCCAAACAAAGATCATTCTGTTGTTAAGGCAGGTTTGAATGTTGATGGAGTAACCTGGAATGTAACTTGTGTCAGTATGGGAAATCCTCATTGTATAACTTTTGGTACAGAAGGAGGCCAGAATTTGCAGGTTGATGAATTGAATTTAGCTGAAATTGGTCCAAAATTTGAGCTCCATGAGGTGTTTCCAGCAAGAACTAACACAGAATTTGTGCAAGTTTTCACTCCTTCACACCTCAAAATGCGAGTCTGGGAGCGTGGTGCAGGAGCAACACTGGCTTGTGGAACTGGTGCTTGTGCTGTAGTTGTAGCAGCAGTTCTTGAGGGTCGTGCTGCGCGGAATTGCACGGTTGATTTACCCGGAGGACCATTGCAAATCGAGTGGAGAGAGGAGGACAATCATATTTACATGACCGGCCCAGCCGAAGTAGTTTTTTACGGATCTGTTCCCCTGTAA

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

307

Amino Acids

33.22

Weight (kDa)

5.07

Isoelectric Point (pI)

32.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DAP_epimerase	PF01678	25 - 145	2.3e-34	Diaminopimelate epimerase
DAP_epimerase	PF01678	179 - 299	1.6e-31	Diaminopimelate epimerase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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	2 cut(s)	488, 586
AccB1I	GGYRCC	1 cut(s)	191
AccII	CGCG	2 cut(s)	212, 805
AccIII	TCCGGA	1 cut(s)	148
AciI	CCGC	1 cut(s)	805
AclWI	GGATC	1 cut(s)	916
AcsI	RAATTY	4 cut(s)	589, 610, 632, 674
AcyI	GRCGYC	3 cut(s)	26, 35, 192
AfaI	GTAC	4 cut(s)	83, 360, 453, 574
AfiI	CCNNNNNNNGG	1 cut(s)	55
AgsI	TTSAA	3 cut(s)	256, 505, 610
AjnI	CCWGG	3 cut(s)	108, 217, 521
AluBI	AGCT	3 cut(s)	325, 617, 640
AluI	AGCT	3 cut(s)	325, 617, 640
Alw21I	GWGCWC	1 cut(s)	642
AlwI	GGATC	1 cut(s)	916
Aor13HI	TCCGGA	1 cut(s)	148
AoxI	GGCC	4 cut(s)	57, 88, 583, 883
ApeKI	GCWGC	3 cut(s)	14, 779, 800
ApoI	RAATTY	4 cut(s)	589, 610, 632, 674
ArsI	GACNNNNNNTTYG	2 cut(s)	699, 731
AspLEI	GCGC	3 cut(s)	194, 214, 805
AspS9I	GGNCC	4 cut(s)	46, 626, 833, 884
AsuC2I	CCSGG	1 cut(s)	828
AvaII	GGWCC	3 cut(s)	46, 626, 833
AxyI	CCTNAGG	1 cut(s)	138
BanI	GGYRCC	1 cut(s)	191
BanII	GRGCYC	1 cut(s)	642
Bbv12I	GWGCWC	1 cut(s)	642
BbvI	GCAGC	3 cut(s)	26, 787, 791
BccI	CCATC	4 cut(s)	191, 257, 395, 506
BceAI	ACGGC	1 cut(s)	103
BciT130I	CCWGG	3 cut(s)	110, 219, 523
BcnI	CCSGG	1 cut(s)	828
BfmI	CTRYAG	1 cut(s)	768
BfoI	RGCGCY	1 cut(s)	195
BfuAI	ACCTGC	2 cut(s)	488, 586
BglI	GCCNNNNNGGC	1 cut(s)	23
BisI	GCNGC	3 cut(s)	15, 780, 801
BlsI	GCNGC	3 cut(s)	16, 781, 802
Bme1390I	CCNGG	4 cut(s)	110, 219, 523, 828
Bme18I	GGWCC	3 cut(s)	46, 626, 833
BmgT120I	GGNCC	4 cut(s)	46, 626, 833, 884
BmiI	GGNNCC	4 cut(s)	135, 193, 344, 429
BmrFI	CCNGG	4 cut(s)	110, 219, 523, 828
BmsI	GCATC	2 cut(s)	231, 452
BpuEI	CTTGAG	2 cut(s)	347, 809
BpuMI	CCSGG	1 cut(s)	828
BsaHI	GRCGYC	3 cut(s)	26, 35, 192
BsaJI	CCNNGG	2 cut(s)	85, 91
BsaWI	WCCGGW	3 cut(s)	48, 148, 297
Bsc4I	CCNNNNNNNGG	1 cut(s)	55
Bse118I	RCCGGY	2 cut(s)	31, 881
Bse1I	ACTGG	3 cut(s)	370, 747, 760
Bse21I	CCTNAGG	1 cut(s)	138
Bse3DI	GCAATG	1 cut(s)	836
BseAI	TCCGGA	1 cut(s)	148
BseBI	CCWGG	3 cut(s)	110, 219, 523
BseDI	CCNNGG	2 cut(s)	85, 91
BseGI	GGATG	2 cut(s)	105, 403
BseLI	CCNNNNNNNGG	1 cut(s)	55
BseMI	GCAATG	1 cut(s)	836
BseNI	ACTGG	3 cut(s)	370, 747, 760
BseRI	GAGGAG	1 cut(s)	872
BseXI	GCAGC	3 cut(s)	26, 787, 791
BseYI	CCCAGC	1 cut(s)	886
BsgI	GTGCAG	1 cut(s)	750
Bsh1236I	CGCG	2 cut(s)	212, 805
BshFI	GGCC	4 cut(s)	59, 90, 585, 885
BshNI	GGYRCC	1 cut(s)	191
BsiHKAI	GWGCWC	1 cut(s)	642
BsiSI	CCGG	8 cut(s)	32, 49, 60, 149, 275, 298, 828, 882
BslI	CCNNNNNNNGG	1 cut(s)	55
BsnI	GGCC	4 cut(s)	59, 90, 585, 885
Bsp1286I	GDGCHC	1 cut(s)	642
Bsp13I	TCCGGA	1 cut(s)	148
Bsp143I	GATC	3 cut(s)	172, 478, 908
BspACI	CCGC	1 cut(s)	805
BspANI	GGCC	4 cut(s)	59, 90, 585, 885
BspEI	TCCGGA	1 cut(s)	148
BspFNI	CGCG	2 cut(s)	212, 805
BspLI	GGNNCC	4 cut(s)	135, 193, 344, 429
BspMI	ACCTGC	2 cut(s)	488, 586
BspPI	GGATC	1 cut(s)	916
BspT107I	GGYRCC	1 cut(s)	191
BsrDI	GCAATG	1 cut(s)	836
BsrFI	RCCGGY	2 cut(s)	31, 881
BsrI	ACTGG	3 cut(s)	370, 747, 760
BssAI	RCCGGY	2 cut(s)	31, 881
BssECI	CCNNGG	2 cut(s)	85, 91
BssMI	GATC	3 cut(s)	172, 478, 908
BssNI	GRCGYC	3 cut(s)	26, 35, 192
Bst2UI	CCWGG	3 cut(s)	110, 219, 523
Bst4CI	ACNGT	2 cut(s)	358, 817
BstACI	GRCGYC	3 cut(s)	26, 35, 192
BstC8I	GCNNGC	3 cut(s)	33, 156, 272
BstDEI	CTNAG	1 cut(s)	138
BstDSI	CCRYGG	1 cut(s)	85
BstF5I	GGATG	2 cut(s)	105, 403
BstFNI	CGCG	2 cut(s)	212, 805
BstH2I	RGCGCY	1 cut(s)	195
BstHHI	GCGC	3 cut(s)	194, 214, 805
BstKTI	GATC	3 cut(s)	175, 481, 911
BstMBI	GATC	3 cut(s)	172, 478, 908
BstMWI	GCNNNNNNNGC	4 cut(s)	23, 32, 228, 743
BstNI	CCWGG	3 cut(s)	110, 219, 523
BstSCI	CCNGG	4 cut(s)	108, 217, 521, 826
BstSFI	CTRYAG	1 cut(s)	768
BstUI	CGCG	2 cut(s)	212, 805
BstV1I	GCAGC	3 cut(s)	26, 787, 791
BstX2I	RGATCY	1 cut(s)	908
BstYI	RGATCY	1 cut(s)	908
Bsu36I	CCTNAGG	1 cut(s)	138
BsuRI	GGCC	4 cut(s)	59, 90, 585, 885
BtgI	CCRYGG	1 cut(s)	85
BtsCI	GGATG	2 cut(s)	105, 403
BtsI	GCAGTG	1 cut(s)	165
BtsIMutI	CAGTG	3 cut(s)	165, 231, 740
BveI	ACCTGC	2 cut(s)	488, 586
Cac8I	GCNNGC	3 cut(s)	33, 156, 272
CfoI	GCGC	3 cut(s)	194, 214, 805
Cfr10I	RCCGGY	2 cut(s)	31, 881
Cfr13I	GGNCC	4 cut(s)	46, 626, 833, 884
CseI	GACGC	2 cut(s)	15, 24
Csp6I	GTAC	4 cut(s)	82, 359, 452, 573
CspCI	CAANNNNNGTGG	2 cut(s)	830, 865
CviAII	CATG	3 cut(s)	338, 644, 877
CviQI	GTAC	4 cut(s)	82, 359, 452, 573
DdeI	CTNAG	1 cut(s)	138
DinI	GGCGCC	1 cut(s)	193
DpnI	GATC	3 cut(s)	174, 480, 910
DpnII	GATC	3 cut(s)	172, 478, 908
Ecl136II	GAGCTC	1 cut(s)	640
Eco24I	GRGCYC	1 cut(s)	642
Eco47I	GGWCC	3 cut(s)	46, 626, 833
Eco53kI	GAGCTC	1 cut(s)	640
Eco81I	CCTNAGG	1 cut(s)	138
EcoICRI	GAGCTC	1 cut(s)	640
EcoRII	CCWGG	3 cut(s)	108, 217, 521
EcoT38I	GRGCYC	1 cut(s)	642
EgeI	GGCGCC	1 cut(s)	193
EheI	GGCGCC	1 cut(s)	193
FaeI	CATG	3 cut(s)	341, 647, 880
FatI	CATG	3 cut(s)	337, 643, 876
Fnu4HI	GCNGC	3 cut(s)	15, 780, 801
FokI	GGATG	2 cut(s)	92, 410
FriOI	GRGCYC	1 cut(s)	642
Fsp4HI	GCNGC	3 cut(s)	15, 780, 801
GlaI	GCGC	3 cut(s)	193, 213, 804
GluI	GCNGC	3 cut(s)	15, 780, 801
GsaI	CCCAGC	1 cut(s)	890
HaeII	RGCGCY	1 cut(s)	195
HaeIII	GGCC	4 cut(s)	59, 90, 585, 885
HapII	CCGG	8 cut(s)	32, 49, 60, 149, 275, 298, 828, 882
HgaI	GACGC	2 cut(s)	15, 24
HhaI	GCGC	3 cut(s)	194, 214, 805
Hin1I	GRCGYC	3 cut(s)	26, 35, 192
Hin1II	CATG	3 cut(s)	341, 647, 880
Hin6I	GCGC	3 cut(s)	192, 212, 803
HinP1I	GCGC	3 cut(s)	192, 212, 803
HinfI	GANTC	7 cut(s)	63, 125, 201, 294, 312, 331, 714
HpaII	CCGG	8 cut(s)	32, 49, 60, 149, 275, 298, 828, 882
Hpy188I	TCNGA	4 cut(s)	133, 177, 262, 448
Hpy188III	TCNNGA	5 cut(s)	44, 149, 184, 386, 788
Hpy99I	CGWCG	2 cut(s)	11, 31
HpyAV	CCTTC	4 cut(s)	77, 400, 572, 705
HpyCH4III	ACNGT	2 cut(s)	358, 817
HpyCH4V	TGCA	5 cut(s)	595, 682, 731, 813, 841
HpyF10VI	GCNNNNNNNGC	4 cut(s)	23, 32, 228, 743
HpyF3I	CTNAG	1 cut(s)	138
Hsp92I	GRCGYC	3 cut(s)	26, 35, 192
Hsp92II	CATG	3 cut(s)	341, 647, 880
HspAI	GCGC	3 cut(s)	192, 212, 803
KasI	GGCGCC	1 cut(s)	191
Kpn2I	TCCGGA	1 cut(s)	148
KroI	GCCGGC	1 cut(s)	31
KroNI	GCCGGC	1 cut(s)	33
Kzo9I	GATC	3 cut(s)	172, 478, 908
LmnI	GCTCC	7 cut(s)	133, 151, 267, 427, 645, 721, 734
Lsp1109I	GCAGC	3 cut(s)	26, 787, 791
LweI	GCATC	2 cut(s)	231, 452
MaeIII	GTNAC	3 cut(s)	142, 517, 529
MalI	GATC	3 cut(s)	174, 480, 910
MboI	GATC	3 cut(s)	172, 478, 908
MboII	GAAGA	2 cut(s)	120, 199
MflI	RGATCY	1 cut(s)	908
MhlI	GDGCHC	1 cut(s)	642
Mly113I	GGCGCC	1 cut(s)	192
MlyI	GAGTC	3 cut(s)	210, 303, 723
MreI	CGCCGGCG	1 cut(s)	31
MroI	TCCGGA	1 cut(s)	148
MroNI	GCCGGC	1 cut(s)	31
MseI	TTAA	2 cut(s)	438, 492
MslI	CAYNNNNRTG	1 cut(s)	366
MspI	CCGG	8 cut(s)	32, 49, 60, 149, 275, 298, 828, 882
MspR9I	CCNGG	4 cut(s)	110, 219, 523, 828
MvaI	CCWGG	3 cut(s)	110, 219, 523
MvnI	CGCG	2 cut(s)	212, 805
MwoI	GCNNNNNNNGC	4 cut(s)	23, 32, 228, 743
NaeI	GCCGGC	1 cut(s)	33
NarI	GGCGCC	1 cut(s)	192
NciI	CCSGG	1 cut(s)	828
NdeII	GATC	3 cut(s)	172, 478, 908
NgoMIV	GCCGGC	1 cut(s)	31
NlaIII	CATG	3 cut(s)	341, 647, 880
NlaIV	GGNNCC	4 cut(s)	135, 193, 344, 429
NmeAIII	GCCGAG	1 cut(s)	72
PcsI	WCGNNNNNNNCGW	1 cut(s)	15
PdiI	GCCGGC	1 cut(s)	33
PfeI	GAWTC	4 cut(s)	63, 125, 312, 331
PkrI	GCNGC	3 cut(s)	16, 781, 802
PleI	GAGTC	3 cut(s)	209, 302, 722
PluTI	GGCGCC	1 cut(s)	195
PpsI	GAGTC	3 cut(s)	209, 302, 722
Psp124BI	GAGCTC	1 cut(s)	642
Psp6I	CCWGG	3 cut(s)	108, 217, 521
PspFI	CCCAGC	1 cut(s)	886
PspGI	CCWGG	3 cut(s)	108, 217, 521
PspN4I	GGNNCC	4 cut(s)	135, 193, 344, 429
PspPI	GGNCC	4 cut(s)	46, 626, 833, 884
PsrI	GAACNNNNNNTAC	2 cut(s)	768, 800
PsuI	RGATCY	1 cut(s)	908
RsaI	GTAC	4 cut(s)	83, 360, 453, 574
RsaNI	GTAC	4 cut(s)	82, 359, 452, 573
RseI	CAYNNNNRTG	1 cut(s)	366
SacI	GAGCTC	1 cut(s)	642
SaqAI	TTAA	2 cut(s)	438, 492
SatI	GCNGC	3 cut(s)	15, 780, 801
Sau3AI	GATC	3 cut(s)	172, 478, 908
Sau96I	GGNCC	4 cut(s)	46, 626, 833, 884
SchI	GAGTC	3 cut(s)	210, 303, 723
ScrFI	CCNGG	4 cut(s)	110, 219, 523, 828
SduI	GDGCHC	1 cut(s)	642
SfaNI	GCATC	2 cut(s)	231, 452
SfcI	CTRYAG	1 cut(s)	768
SfoI	GGCGCC	1 cut(s)	193
SgrAI	CRCCGGYG	1 cut(s)	31
SinI	GGWCC	3 cut(s)	46, 626, 833
SmiMI	CAYNNNNRTG	1 cut(s)	366
SmlI	CTYRAG	2 cut(s)	326, 788
SmoI	CTYRAG	2 cut(s)	326, 788
SsiI	CCGC	1 cut(s)	805
SspDI	GGCGCC	1 cut(s)	191
SstI	GAGCTC	1 cut(s)	642
StyD4I	CCNGG	4 cut(s)	108, 217, 521, 826
TaaI	ACNGT	2 cut(s)	358, 817
TaqI	TCGA	2 cut(s)	9, 846
TatI	WGTACW	1 cut(s)	358
TfiI	GAWTC	4 cut(s)	63, 125, 312, 331
Tru1I	TTAA	2 cut(s)	438, 492
Tru9I	TTAA	2 cut(s)	438, 492
TscAI	CASTG	3 cut(s)	165, 238, 747
TseI	GCWGC	3 cut(s)	14, 779, 800
TspDTI	ATGAA	3 cut(s)	94, 304, 618
TspGWI	ACGGA	1 cut(s)	921
TspRI	CASTG	3 cut(s)	165, 238, 747
VpaK11BI	GGWCC	3 cut(s)	46, 626, 833
XapI	RAATTY	4 cut(s)	589, 610, 632, 674

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