Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Reverse (-)

39985926 .. 39994636

Gene Structure 8711 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00246740.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1314 bp

ATGCCCAGAAATCAATCAGATCTGTCCCTCTCTCGCTTTGTGGACTGCATCTTGTCGATCTCCACTCTCAAAACAGAATTCCTTTTCCTCACAGGGCTTCTGCTATATTTGTATTCAGACATCAATCAGACTGCAGGTGCTATTGGAGGTGCTGCTTCTTCTATTGTACGAGTGCCAACAGAGTCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAAACATTGTTGGTTGAGGTTGATCAGATATACCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATATAATCCTGTAAAGGTATACAATAAAAACAAATGTGAGGGCAAGCGTGTTGCTGAGACCTTGATGTTTGACTATCATCGGCAACATGGGATAGGCCGTTTCATTGCTGAGCTGACAAAGCAAGTGTTTTCTGATCTTTCTGCCAGTAAATATCAGATTGGCTCCTTGCCTGATGCTCTGTTTTTATACTGCAGATGGCTGAGCACAGAATATCAAAATATGGCAAGAAGCAAAGTAAATGCAAGATTACCTTTCAGAAATAGGTCATATGAATTTGGGGGTTCTAGTAACAATGTTAGATTCACGTCACTATATTTGAACTGTGGTTATTATAGTATAACTGCTGTTCTTTGCATTATAATCTCTGTGTTCGATCTGTGGCATTTGTCTTCCTCTTACCATAAGCTCTATCTACTGTGTTTTGATTCCAGGCCAAACGATATAAGGTGCGTGCTTCAAGGAAACCTCTGCCTCGCTTTGAAGATAAATGAGCCTCGGGAAGAAATTTCAACACGGACAAGTTGGGCTCCCACAATTGATCCATCCGATAAAGGAAAGAAGAAAGTCGAGTTGGTTGAAGAAGATGAGTTTGAAGATGATTTGGATCATGGTTTTGAAGCTAACCACATATATGAAGAAGATGATATAGCTATTGAGGAAGAAGAGGGTGATGAGGGAGTTCAAGTAGATGAGGAATGCTCTAATGATAATGACTACAATCTAGCTAAGCATGATGATGAGTATGTGGGTTATGGAGTTAATGATGATTTTTTGTTTGACGAGGTTAACGAACCGGAAGGAGGGCATAATAAGGGGGCTTCTCGGCCCTCGAAGGGGTTAGAAATGGAGATGACACCAATGCAGCTATTGATTTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0008150 GO:0009987 GO:0016043 GO:0016829 GO:0016830 GO:0016831 GO:0022607 GO:0036094 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043933 GO:0044085 GO:0044424 GO:0044464 GO:0046983 GO:0048037 GO:0048040 GO:0050662 GO:0051259 GO:0051262 GO:0051287 GO:0065003 GO:0070403 GO:0071840 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

437

Amino Acids

49.8

Weight (kDa)

4.89

Isoelectric Point (pI)

41.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	66 - 193	3.5e-11	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	67 - 139	6.8e-10	GDP-mannose 4,6 dehydratase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001856)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550
malus_domestica	MD03G1096800.v1.1 MD11G1143300.v1.1
prunus_persica	Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1
pyrus_communis	pycom03g08000 pycom11g09310
rosa_chinensis	RchiOBHm_Chr5g0063761
rosa_laevigata	RLG00000035666
rosa_multiflora	Rmu_sc0002724.1_g000023
rosa_roxburghii	Rroxscaffold_1G00017090 Rroxscaffold_1G00037850 Rroxscaffold_3G00246740
rosa_rugosa	Rorug03G0248000 Rorug05G0359100 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359300 Rorug05G0359400
rosa_samantha	Rh2BG210700 Rh5AG128600 Rh5AG389400 Rh5BG433300 Rh5CG456500 Rh5DG446900 Rh5DG449700 Rh6AG145900
rosa_wichuraiana	Rw4G004490 Rw5G039270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	794
AarI	CACCTGC	1 cut(s)	125
Acc36I	ACCTGC	1 cut(s)	125
AccI	GTMKAC	1 cut(s)	453
AclWI	GGATC	2 cut(s)	968, 1047
AcsI	RAATTY	3 cut(s)	77, 707, 939
AfaI	GTAC	1 cut(s)	168
AfiI	CCNNNNNNNGG	3 cut(s)	1235, 1268, 1269
AgsI	TTSAA	8 cut(s)	754, 893, 916, 945, 1013, 1028, 1052, 1118
AjiI	CACGTC	1 cut(s)	741
AjnI	CCWGG	2 cut(s)	234, 863
AjuI	GAANNNNNNNTTGG	2 cut(s)	989, 1021
AluBI	AGCT	9 cut(s)	215, 346, 416, 547, 841, 1055, 1085, 1160, 1300
AluI	AGCT	9 cut(s)	215, 346, 416, 547, 841, 1055, 1085, 1160, 1300
Alw21I	GWGCWC	1 cut(s)	641
Alw26I	GTCTC	1 cut(s)	485
AlwI	GGATC	2 cut(s)	968, 1047
Ama87I	CYCGRG	1 cut(s)	930
AoxI	GGCC	3 cut(s)	529, 866, 1259
ApeKI	GCWGC	2 cut(s)	152, 1297
ApoI	RAATTY	3 cut(s)	77, 707, 939
AseI	ATTAAT	1 cut(s)	248
AspS9I	GGNCC	1 cut(s)	1260
AsuHPI	GGTGA	2 cut(s)	224, 1115
AvaI	CYCGRG	1 cut(s)	930
BanII	GRGCYC	1 cut(s)	964
BbsI	GAAGAC	1 cut(s)	816
Bbv12I	GWGCWC	1 cut(s)	641
BbvI	GCAGC	2 cut(s)	139, 1309
BccI	CCATC	3 cut(s)	408, 624, 985
BceAI	ACGGC	1 cut(s)	516
BciT130I	CCWGG	2 cut(s)	236, 865
BclI	TGATCA	1 cut(s)	388
BcoDI	GTCTC	1 cut(s)	485
BfaI	CTAG	2 cut(s)	720, 1157
BfmI	CTRYAG	2 cut(s)	132, 625
BfuAI	ACCTGC	1 cut(s)	125
BglII	AGATCT	1 cut(s)	19
BisI	GCNGC	2 cut(s)	153, 1298
BlpI	GCTNAGC	3 cut(s)	543, 635, 1161
BlsI	GCNGC	2 cut(s)	154, 1299
Bme1390I	CCNGG	2 cut(s)	236, 865
BmeT110I	CYCGRG	1 cut(s)	930
BmgBI	CACGTC	1 cut(s)	741
BmgT120I	GGNCC	1 cut(s)	1260
BmiI	GGNNCC	3 cut(s)	301, 598, 963
BmrFI	CCNGG	2 cut(s)	236, 865
BmsI	GCATC	2 cut(s)	57, 598
BpiI	GAAGAC	1 cut(s)	816
BplI	GAGNNNNNCTC	2 cut(s)	1118, 1150
BpmI	CTGGAG	1 cut(s)	228
Bpu1102I	GCTNAGC	3 cut(s)	543, 635, 1161
BsaBI	GATNNNNATC	1 cut(s)	1038
BsaI	GGTCTC	1 cut(s)	485
BsaJI	CCNNGG	2 cut(s)	303, 929
BsaWI	WCCGGW	1 cut(s)	1228
BsaXI	ACNNNNNCTCC	2 cut(s)	1104, 1134
Bsc4I	CCNNNNNNNGG	3 cut(s)	1235, 1268, 1269
Bse1I	ACTGG	3 cut(s)	211, 301, 579
Bse3DI	GCAATG	1 cut(s)	537
Bse8I	GATNNNNATC	1 cut(s)	1038
BseBI	CCWGG	2 cut(s)	236, 865
BseDI	CCNNGG	2 cut(s)	303, 929
BseGI	GGATG	2 cut(s)	331, 977
BseJI	GATNNNNATC	1 cut(s)	1038
BseLI	CCNNNNNNNGG	3 cut(s)	1235, 1268, 1269
BseMI	GCAATG	1 cut(s)	537
BseMII	CTCAG	3 cut(s)	480, 534, 626
BseNI	ACTGG	3 cut(s)	211, 301, 579
BseRI	GAGGAG	1 cut(s)	225
BseXI	GCAGC	2 cut(s)	139, 1309
BseYI	CCCAGC	1 cut(s)	412
BshFI	GGCC	3 cut(s)	531, 868, 1261
BsiHKAI	GWGCWC	1 cut(s)	641
BsiHKCI	CYCGRG	1 cut(s)	930
BsiSI	CCGG	1 cut(s)	1229
BslFI	GGGAC	1 cut(s)	10
BslI	CCNNNNNNNGG	3 cut(s)	1235, 1268, 1269
BsmAI	GTCTC	1 cut(s)	485
BsmFI	GGGAC	1 cut(s)	10
BsmI	GAATGC	1 cut(s)	1136
BsnI	GGCC	3 cut(s)	531, 868, 1261
Bso31I	GGTCTC	1 cut(s)	485
BsoBI	CYCGRG	1 cut(s)	930
Bsp1286I	GDGCHC	2 cut(s)	641, 964
Bsp143I	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
Bsp1720I	GCTNAGC	3 cut(s)	543, 635, 1161
BspANI	GGCC	3 cut(s)	531, 868, 1261
BspCNI	CTCAG	3 cut(s)	481, 535, 627
BspHI	TCATGA	1 cut(s)	355
BspLI	GGNNCC	3 cut(s)	301, 598, 963
BspMAI	CTGCAG	2 cut(s)	136, 629
BspMI	ACCTGC	1 cut(s)	125
BspPI	GGATC	2 cut(s)	968, 1047
BspTNI	GGTCTC	1 cut(s)	485
BsrDI	GCAATG	1 cut(s)	537
BsrI	ACTGG	3 cut(s)	211, 301, 579
BssECI	CCNNGG	2 cut(s)	303, 929
BssMI	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
BssNAI	GTATAC	1 cut(s)	454
BssT1I	CCWWGG	1 cut(s)	303
Bst1107I	GTATAC	1 cut(s)	454
Bst2UI	CCWGG	2 cut(s)	236, 865
Bst4CI	ACNGT	2 cut(s)	758, 852
Bst6I	CTCTTC	1 cut(s)	1092
BstC8I	GCNNGC	3 cut(s)	409, 479, 887
BstDEI	CTNAG	4 cut(s)	489, 543, 635, 1161
BstF5I	GGATG	2 cut(s)	331, 977
BstKTI	GATC	7 cut(s)	22, 60, 391, 571, 811, 976, 1042
BstMAI	GTCTC	1 cut(s)	485
BstMBI	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
BstMWI	GCNNNNNNNGC	2 cut(s)	413, 553
BstNI	CCWGG	2 cut(s)	236, 865
BstNSI	RCATGY	1 cut(s)	411
BstSCI	CCNGG	2 cut(s)	234, 863
BstSFI	CTRYAG	2 cut(s)	132, 625
BstV1I	GCAGC	2 cut(s)	139, 1309
BstV2I	GAAGAC	1 cut(s)	816
BstX2I	RGATCY	1 cut(s)	19
BstYI	RGATCY	1 cut(s)	19
BstZ17I	GTATAC	1 cut(s)	454
BsuRI	GGCC	3 cut(s)	531, 868, 1261
BtrI	CACGTC	1 cut(s)	741
BtsCI	GGATG	2 cut(s)	331, 977
BtsIMutI	CAGTG	2 cut(s)	294, 363
BveI	ACCTGC	1 cut(s)	125
Cac8I	GCNNGC	3 cut(s)	409, 479, 887
CciI	TCATGA	1 cut(s)	355
Cfr13I	GGNCC	1 cut(s)	1260
CsiI	ACCWGGT	1 cut(s)	234
Csp6I	GTAC	1 cut(s)	167
CviAII	CATG	6 cut(s)	190, 356, 408, 521, 1043, 1166
CviQI	GTAC	1 cut(s)	167
DdeI	CTNAG	4 cut(s)	489, 543, 635, 1161
DpnI	GATC	7 cut(s)	21, 59, 390, 570, 810, 975, 1041
DpnII	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
Eam1104I	CTCTTC	1 cut(s)	1092
EarI	CTCTTC	1 cut(s)	1092
Eco130I	CCWWGG	1 cut(s)	303
Eco24I	GRGCYC	1 cut(s)	964
Eco31I	GGTCTC	1 cut(s)	485
Eco88I	CYCGRG	1 cut(s)	930
EcoRI	GAATTC	1 cut(s)	77
EcoRII	CCWGG	2 cut(s)	234, 863
EcoT14I	CCWWGG	1 cut(s)	303
EcoT38I	GRGCYC	1 cut(s)	964
ErhI	CCWWGG	1 cut(s)	303
FaeI	CATG	6 cut(s)	193, 359, 411, 524, 1046, 1169
FalI	AAGNNNNNCTT	2 cut(s)	670, 702
FaqI	GGGAC	1 cut(s)	10
FatI	CATG	6 cut(s)	189, 355, 407, 520, 1042, 1165
FauNDI	CATATG	1 cut(s)	703
FbaI	TGATCA	1 cut(s)	388
FblI	GTMKAC	1 cut(s)	453
Fnu4HI	GCNGC	2 cut(s)	153, 1298
FokI	GGATG	2 cut(s)	318, 964
FriOI	GRGCYC	1 cut(s)	964
Fsp4HI	GCNGC	2 cut(s)	153, 1298
FspBI	CTAG	2 cut(s)	720, 1157
GluI	GCNGC	2 cut(s)	153, 1298
GsaI	CCCAGC	1 cut(s)	416
GsuI	CTGGAG	1 cut(s)	228
HaeIII	GGCC	3 cut(s)	531, 868, 1261
HapII	CCGG	1 cut(s)	1229
Hin1II	CATG	6 cut(s)	193, 359, 411, 524, 1046, 1169
HincII	GTYRAC	2 cut(s)	241, 1222
HindII	GTYRAC	2 cut(s)	241, 1222
HinfI	GANTC	5 cut(s)	182, 195, 219, 735, 860
HpaI	GTTAAC	1 cut(s)	1222
HpaII	CCGG	1 cut(s)	1229
HphI	GGTGA	2 cut(s)	224, 1115
Hpy166II	GTNNAC	4 cut(s)	43, 241, 454, 1222
Hpy188I	TCNGA	8 cut(s)	19, 118, 129, 393, 568, 591, 692, 982
Hpy188III	TCNNGA	2 cut(s)	356, 932
Hpy8I	GTNNAC	4 cut(s)	43, 241, 454, 1222
HpyAV	CCTTC	2 cut(s)	1226, 1261
HpyCH4III	ACNGT	2 cut(s)	758, 852
HpyCH4IV	ACGT	1 cut(s)	740
HpyCH4V	TGCA	7 cut(s)	48, 134, 407, 627, 677, 789, 1297
HpyF10VI	GCNNNNNNNGC	2 cut(s)	413, 553
HpyF3I	CTNAG	4 cut(s)	489, 543, 635, 1161
HpySE526I	ACGT	1 cut(s)	740
Hsp92II	CATG	6 cut(s)	193, 359, 411, 524, 1046, 1169
Ksp22I	TGATCA	1 cut(s)	388
KspAI	GTTAAC	1 cut(s)	1222
Kzo9I	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
LmnI	GCTCC	4 cut(s)	212, 305, 602, 967
Lsp1109I	GCAGC	2 cut(s)	139, 1309
LweI	GCATC	2 cut(s)	57, 598
MabI	ACCWGGT	1 cut(s)	234
MaeI	CTAG	2 cut(s)	720, 1157
MaeII	ACGT	1 cut(s)	740
MaeIII	GTNAC	4 cut(s)	202, 361, 722, 741
MalI	GATC	7 cut(s)	21, 59, 390, 570, 810, 975, 1041
MboI	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
MfeI	CAATTG	1 cut(s)	969
MflI	RGATCY	1 cut(s)	19
MhlI	GDGCHC	2 cut(s)	641, 964
MluCI	AATT	5 cut(s)	77, 423, 707, 939, 969
MlyI	GAGTC	1 cut(s)	191
MmeI	TCCRAC	1 cut(s)	210
MseI	TTAA	5 cut(s)	248, 315, 1194, 1221, 1312
MslI	CAYNNNNRTG	2 cut(s)	1065, 1170
MspI	CCGG	1 cut(s)	1229
MspR9I	CCNGG	2 cut(s)	236, 865
MunI	CAATTG	1 cut(s)	969
Mva1269I	GAATGC	1 cut(s)	1136
MvaI	CCWGG	2 cut(s)	236, 865
MwoI	GCNNNNNNNGC	2 cut(s)	413, 553
NdeI	CATATG	1 cut(s)	703
NdeII	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
NlaIII	CATG	6 cut(s)	193, 359, 411, 524, 1046, 1169
NlaIV	GGNNCC	3 cut(s)	301, 598, 963
NmeAIII	GCCGAG	1 cut(s)	1237
NmuCI	GTSAC	2 cut(s)	361, 741
NspI	RCATGY	1 cut(s)	411
PaeI	GCATGC	1 cut(s)	411
PagI	TCATGA	1 cut(s)	355
PaqCI	CACCTGC	1 cut(s)	125
PcsI	WCGNNNNNNNCGW	1 cut(s)	1221
PctI	GAATGC	1 cut(s)	1136
PfeI	GAWTC	4 cut(s)	195, 219, 735, 860
PkrI	GCNGC	2 cut(s)	154, 1299
PleI	GAGTC	1 cut(s)	190
PpsI	GAGTC	1 cut(s)	190
PshBI	ATTAAT	1 cut(s)	248
PsiI	TTATAA	1 cut(s)	794
Psp6I	CCWGG	2 cut(s)	234, 863
PspFI	CCCAGC	1 cut(s)	412
PspGI	CCWGG	2 cut(s)	234, 863
PspN4I	GGNNCC	3 cut(s)	301, 598, 963
PspPI	GGNCC	1 cut(s)	1260
PstI	CTGCAG	2 cut(s)	136, 629
PsuI	RGATCY	1 cut(s)	19
RsaI	GTAC	1 cut(s)	168
RsaNI	GTAC	1 cut(s)	167
RseI	CAYNNNNRTG	2 cut(s)	1065, 1170
SaqAI	TTAA	5 cut(s)	248, 315, 1194, 1221, 1312
SatI	GCNGC	2 cut(s)	153, 1298
Sau3AI	GATC	7 cut(s)	19, 57, 388, 568, 808, 973, 1039
Sau96I	GGNCC	1 cut(s)	1260
SchI	GAGTC	1 cut(s)	191
ScrFI	CCNGG	2 cut(s)	236, 865
SduI	GDGCHC	2 cut(s)	641, 964
SexAI	ACCWGGT	1 cut(s)	234
SfaNI	GCATC	2 cut(s)	57, 598
SfcI	CTRYAG	2 cut(s)	132, 625
SmiMI	CAYNNNNRTG	2 cut(s)	1065, 1170
SphI	GCATGC	1 cut(s)	411
Sse9I	AATT	5 cut(s)	77, 423, 707, 939, 969
SspMI	CTAG	2 cut(s)	720, 1157
StyD4I	CCNGG	2 cut(s)	234, 863
StyI	CCWWGG	1 cut(s)	303
TaaI	ACNGT	2 cut(s)	758, 852
TaiI	ACGT	1 cut(s)	743
TaqI	TCGA	4 cut(s)	56, 807, 1002, 1265
TasI	AATT	5 cut(s)	77, 423, 707, 939, 969
TfiI	GAWTC	4 cut(s)	195, 219, 735, 860
Tru1I	TTAA	5 cut(s)	248, 315, 1194, 1221, 1312
Tru9I	TTAA	5 cut(s)	248, 315, 1194, 1221, 1312
TscAI	CASTG	2 cut(s)	301, 370
TseFI	GTSAC	2 cut(s)	361, 741
TseI	GCWGC	2 cut(s)	152, 1297
Tsp45I	GTSAC	2 cut(s)	361, 741
TspDTI	ATGAA	5 cut(s)	211, 273, 526, 720, 1083
TspGWI	ACGGA	1 cut(s)	964
TspRI	CASTG	2 cut(s)	301, 370
VspI	ATTAAT	1 cut(s)	248
XapI	RAATTY	3 cut(s)	77, 707, 939
XceI	RCATGY	1 cut(s)	411
XmiI	GTMKAC	1 cut(s)	453
XspI	CTAG	2 cut(s)	720, 1157

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