Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0005138

Physical Location & Seq

Genomic Coordinates Forward (+)

43127706 .. 43131184

Gene Structure 3479 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00422140.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1158 bp

ATGGCTAGGGCTCCAAGCAAGCACGGTCGCGACCAACCTCTGGATTTCCGGGGGTTTTTGAGTGACTTGCAGGACCGGAAGCTTTCACGCAAGGACAAGGATAACAAAATGAGGCCACGACAACCCAACAAGGAAATTCCGAAATCAGGAGATTTTGGAACTAGTTTCGGTTCTGAAGATAGTCTTCCAGACGCTGCTTCGGAAAAGGACTTGGGTAATGAGTATTTTAAGCAGAAGAAGTTTAAGGAAGCTATTGACTGCTATTCAAGAAGCATTGCCTTATCTCCAACTGCTGTAGCTTTTGCAAATAGGGCAATGTCATATATCAAAATCAAAAGATTCCAGGAAGCCGAGAATGACTGTACGGAGGCCTTGAATTTGGATGATCGCTATATAAAAGCATACTCACGACGTGCAACGGCTAGAAAAGAACTGGGAAAACTTAAAGAATCTATTGATGATGCAGAGTTTGCTCTGAGGTTGGAGCCACACAACCAAGAAATCAAGAAACAGTATGCTGAGGCCAAATCTTTGTATGAGAAAAGAATTCTTCAGAAAATTTCTGAACAAGAAAAGCAGAACGTGGGAAAGTTGGATACCAAAGTGAATGGACACATCATCCAGCCTGTTTCTAGTAGTACTCAAAGGACAGAAATGACTGCAGTTGAGGATCACACTAAGAAGATTAACAAAAGTGGGAAGCAAGCATGGAAGGTATCAGTACAAGAGCTTGCTTCTAGAGCTGCTTCACGAGCCAAGGTTCTAGCTGCAGAAAACATCACACCCCCAACTACAGCATATCAATTTGAGGCTTCTTGGAGAGGACTCTCTGGAGATCGTGCTCTTCAGGCTAAATTGTTGAAGGCTATATATCCCAGAGCACTGCCGCATATATTCAAAAATGCTTTGACTGTTCACATACTAGTTGATATCATCAAGTGTGTGACAACCTTTTTATGTGATGAAATGGCTTTAACAGTCAGTTTTTTGGAGAACTTAACTAAGGTTCCTAGATTTGACACAGTCATCATGTTTCTTTCTTCCAAGGACAAGGATGATCTTGCTAAGACATGGGATGAAGTGTTCTACTATGAGGTGATCCCCATTGAGTTTGCTGAAAAGCTTGATAACCTGCGTACAAAGTACTGCCTTAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0032991 GO:0044424 GO:0044444 GO:0044464 GO:0097255

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RPAP3_C TPR_1 TPR_8

Protein Analysis

385

Amino Acids

43.95

Weight (kDa)

9.22

Isoelectric Point (pI)

42.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_BSK1_C	PF25575	62 - 134	1.1e-07	Serine/threonine-protein kinase BSK1-like, TPR repeats
TPR_1	PF00515	69 - 97	5.3e-08	Tetratricopeptide repeat
RPAP3_C	PF13877	262 - 351	2.5e-25	Potential Monad-binding region of RPAP3

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005138)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56440 AT1G56440
fragaria_vesca	FvH4_6g07471 FvH4_6g07471 FvH4_6g07471 FvH4_6g07471 FvH4_6g07471 FvH4_6g07471
malus_domestica	MD12G1205500.v1.1
prunus_persica	Prupe.3G076000_v2.0.a1 Prupe.3G076000_v2.0.a1 Prupe.3G076000_v2.0.a1 Prupe.3G076000_v2.0.a1
pyrus_communis	pycom12g19340
rosa_chinensis	RchiOBHm_Chr3g0457141 RchiOBHm_Chr3g0457161 RchiOBHm_Chr3g0457171
rosa_laevigata	RLG00000025245
rosa_roxburghii	Rroxscaffold_6G00422140 Rroxscaffold_6G00422150
rosa_rugosa	Rorug03G0019200 Rorug03G0019200 Rorug03G0019200
rosa_samantha	Rh3AG079000 Rh3BG080700 Rh3CG080800 Rh3DG082600 Rh3DG082700
rosa_wichuraiana	Rw3G006780 Rw3G006790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1140
AccB7I	CCANNNNNTGG	1 cut(s)	40
AccII	CGCG	1 cut(s)	30
AciI	CCGC	1 cut(s)	887
AclWI	GGATC	2 cut(s)	678, 1093
AcsI	RAATTY	4 cut(s)	135, 376, 546, 558
AcuI	CTGAAG	3 cut(s)	195, 536, 830
AdeI	CACNNNGTG	1 cut(s)	413
AfaI	GTAC	5 cut(s)	364, 640, 723, 1138, 1145
AfiI	CCNNNNNNNGG	2 cut(s)	40, 146
AflII	CTTAAG	1 cut(s)	1151
AgsI	TTSAA	4 cut(s)	267, 376, 862, 898
AhlI	ACTAGT	2 cut(s)	161, 922
AjiI	CACGTC	1 cut(s)	413
AjnI	CCWGG	1 cut(s)	342
AloI	GAACNNNNNNTCC	2 cut(s)	1067, 1099
AluBI	AGCT	7 cut(s)	82, 251, 299, 730, 743, 767, 1123
AluI	AGCT	7 cut(s)	82, 251, 299, 730, 743, 767, 1123
Alw21I	GWGCWC	2 cut(s)	844, 883
AlwI	GGATC	2 cut(s)	678, 1093
AlwNI	CAGNNNCTG	1 cut(s)	194
AoxI	GGCC	3 cut(s)	113, 369, 522
ApeKI	GCWGC	3 cut(s)	194, 743, 767
ApoI	RAATTY	4 cut(s)	135, 376, 546, 558
AspS9I	GGNCC	1 cut(s)	73
AsuC2I	CCSGG	1 cut(s)	50
AsuHPI	GGTGA	1 cut(s)	1108
AvaII	GGWCC	1 cut(s)	73
BaeI	ACNNNNGTAYC	2 cut(s)	588, 621
BanII	GRGCYC	1 cut(s)	13
BauI	CACGAG	1 cut(s)	750
BbsI	GAAGAC	1 cut(s)	176
Bbv12I	GWGCWC	2 cut(s)	844, 883
BbvCI	CCTCAGC	1 cut(s)	519
BbvI	GCAGC	3 cut(s)	181, 730, 754
BceAI	ACGGC	1 cut(s)	435
BciT130I	CCWGG	1 cut(s)	344
BciVI	GTATCC	1 cut(s)	589
BcnI	CCSGG	1 cut(s)	50
BcuI	ACTAGT	2 cut(s)	161, 922
BfaI	CTAG	8 cut(s)	6, 162, 423, 633, 738, 764, 923, 1011
BfmI	CTRYAG	4 cut(s)	294, 660, 768, 792
BfrI	CTTAAG	1 cut(s)	1151
BfuAI	ACCTGC	1 cut(s)	1140
BfuI	GTATCC	1 cut(s)	589
BisI	GCNGC	4 cut(s)	195, 744, 768, 887
BlsI	GCNGC	4 cut(s)	196, 745, 769, 888
BmcAI	AGTACT	2 cut(s)	640, 1145
Bme1390I	CCNGG	2 cut(s)	50, 344
Bme18I	GGWCC	1 cut(s)	73
BmgBI	CACGTC	1 cut(s)	413
BmgT120I	GGNCC	1 cut(s)	73
BmiI	GGNNCC	3 cut(s)	12, 486, 1008
BmrFI	CCNGG	2 cut(s)	50, 344
BmrI	ACTGGG	1 cut(s)	443
BmsI	GCATC	1 cut(s)	451
BmuI	ACTGGG	1 cut(s)	443
BpiI	GAAGAC	1 cut(s)	176
BpmI	CTGGAG	1 cut(s)	852
Bpu10I	CCTNAGC	1 cut(s)	519
BpuMI	CCSGG	1 cut(s)	50
BsaJI	CCNNGG	3 cut(s)	49, 756, 1044
BsaWI	WCCGGW	1 cut(s)	75
Bsc4I	CCNNNNNNNGG	2 cut(s)	40, 146
Bse1I	ACTGG	1 cut(s)	438
Bse3DI	GCAATG	2 cut(s)	273, 321
BseBI	CCWGG	1 cut(s)	344
BseDI	CCNNGG	3 cut(s)	49, 756, 1044
BseGI	GGATG	4 cut(s)	388, 618, 1060, 1081
BseLI	CCNNNNNNNGG	2 cut(s)	40, 146
BseMI	GCAATG	2 cut(s)	273, 321
BseMII	CTCAG	2 cut(s)	467, 510
BseNI	ACTGG	1 cut(s)	438
BseXI	GCAGC	3 cut(s)	181, 730, 754
Bsh1236I	CGCG	1 cut(s)	30
Bsh1285I	CGRYCG	1 cut(s)	28
BshFI	GGCC	3 cut(s)	115, 371, 524
BsiEI	CGRYCG	1 cut(s)	28
BsiHKAI	GWGCWC	2 cut(s)	844, 883
BsiSI	CCGG	2 cut(s)	49, 76
BslI	CCNNNNNNNGG	2 cut(s)	40, 146
BsnI	GGCC	3 cut(s)	115, 371, 524
Bsp1286I	GDGCHC	3 cut(s)	13, 844, 883
Bsp143I	GATC	5 cut(s)	385, 670, 835, 1057, 1098
Bsp68I	TCGCGA	1 cut(s)	30
BspACI	CCGC	1 cut(s)	887
BspANI	GGCC	3 cut(s)	115, 371, 524
BspCNI	CTCAG	2 cut(s)	468, 511
BspFNI	CGCG	1 cut(s)	30
BspLI	GGNNCC	3 cut(s)	12, 486, 1008
BspMAI	CTGCAG	2 cut(s)	664, 772
BspMI	ACCTGC	1 cut(s)	1140
BspPI	GGATC	2 cut(s)	678, 1093
BspQI	GCTCTTC	1 cut(s)	849
BspTI	CTTAAG	1 cut(s)	1151
BsrDI	GCAATG	2 cut(s)	273, 321
BsrI	ACTGG	1 cut(s)	438
BssECI	CCNNGG	3 cut(s)	49, 756, 1044
BssMI	GATC	5 cut(s)	385, 670, 835, 1057, 1098
BssSI	CACGAG	1 cut(s)	750
BssT1I	CCWWGG	2 cut(s)	756, 1044
Bst2BI	CACGAG	1 cut(s)	750
Bst2UI	CCWGG	1 cut(s)	344
Bst4CI	ACNGT	6 cut(s)	26, 362, 513, 913, 979, 1024
Bst6I	CTCTTC	1 cut(s)	849
BstAFI	CTTAAG	1 cut(s)	1151
BstAPI	GCANNNNNTGC	1 cut(s)	470
BstC8I	GCNNGC	3 cut(s)	20, 705, 732
BstDEI	CTNAG	5 cut(s)	476, 519, 678, 1002, 1065
BstF5I	GGATG	4 cut(s)	388, 618, 1060, 1081
BstFNI	CGCG	1 cut(s)	30
BstKTI	GATC	5 cut(s)	388, 673, 838, 1060, 1101
BstMBI	GATC	5 cut(s)	385, 670, 835, 1057, 1098
BstMCI	CGRYCG	1 cut(s)	28
BstMWI	GCNNNNNNNGC	5 cut(s)	311, 470, 740, 752, 848
BstNI	CCWGG	1 cut(s)	344
BstSCI	CCNGG	2 cut(s)	48, 342
BstSFI	CTRYAG	4 cut(s)	294, 660, 768, 792
BstUI	CGCG	1 cut(s)	30
BstV1I	GCAGC	3 cut(s)	181, 730, 754
BstV2I	GAAGAC	1 cut(s)	176
BsuI	GTATCC	1 cut(s)	589
BsuRI	GGCC	3 cut(s)	115, 371, 524
BtrI	CACGTC	1 cut(s)	413
BtsCI	GGATG	4 cut(s)	388, 618, 1060, 1081
BtsI	GCAGTG	1 cut(s)	881
BtsIMutI	CAGTG	1 cut(s)	881
BtuMI	TCGCGA	1 cut(s)	30
BveI	ACCTGC	1 cut(s)	1140
Cac8I	GCNNGC	3 cut(s)	20, 705, 732
CaiI	CAGNNNCTG	1 cut(s)	194
Cfr13I	GGNCC	1 cut(s)	73
CseI	GACGC	1 cut(s)	200
Csp6I	GTAC	5 cut(s)	363, 639, 722, 1137, 1144
CviAII	CATG	3 cut(s)	708, 1030, 1071
CviQI	GTAC	5 cut(s)	363, 639, 722, 1137, 1144
DdeI	CTNAG	5 cut(s)	476, 519, 678, 1002, 1065
DpnI	GATC	5 cut(s)	387, 672, 837, 1059, 1100
DpnII	GATC	5 cut(s)	385, 670, 835, 1057, 1098
DraIII	CACNNNGTG	1 cut(s)	413
Eam1104I	CTCTTC	1 cut(s)	849
EarI	CTCTTC	1 cut(s)	849
Eco130I	CCWWGG	2 cut(s)	756, 1044
Eco147I	AGGCCT	1 cut(s)	371
Eco24I	GRGCYC	1 cut(s)	13
Eco32I	GATATC	1 cut(s)	931
Eco47I	GGWCC	1 cut(s)	73
Eco57I	CTGAAG	3 cut(s)	195, 536, 830
EcoRI	GAATTC	1 cut(s)	546
EcoRII	CCWGG	1 cut(s)	342
EcoRV	GATATC	1 cut(s)	931
EcoT14I	CCWWGG	2 cut(s)	756, 1044
EcoT38I	GRGCYC	1 cut(s)	13
ErhI	CCWWGG	2 cut(s)	756, 1044
FaeI	CATG	3 cut(s)	711, 1033, 1074
FalI	AAGNNNNNCTT	2 cut(s)	168, 200
FatI	CATG	3 cut(s)	707, 1029, 1070
Fnu4HI	GCNGC	4 cut(s)	195, 744, 768, 887
FokI	GGATG	4 cut(s)	395, 605, 1067, 1088
FriOI	GRGCYC	1 cut(s)	13
Fsp4HI	GCNGC	4 cut(s)	195, 744, 768, 887
FspBI	CTAG	8 cut(s)	6, 162, 423, 633, 738, 764, 923, 1011
GluI	GCNGC	4 cut(s)	195, 744, 768, 887
GsuI	CTGGAG	1 cut(s)	852
HaeIII	GGCC	3 cut(s)	115, 371, 524
HapII	CCGG	2 cut(s)	49, 76
HgaI	GACGC	1 cut(s)	200
Hin1II	CATG	3 cut(s)	711, 1033, 1074
HindIII	AAGCTT	2 cut(s)	80, 1121
HinfI	GANTC	3 cut(s)	339, 449, 825
HpaII	CCGG	2 cut(s)	49, 76
HphI	GGTGA	1 cut(s)	1108
Hpy166II	GTNNAC	1 cut(s)	916
Hpy188I	TCNGA	6 cut(s)	141, 175, 202, 477, 555, 565
Hpy8I	GTNNAC	1 cut(s)	916
Hpy99I	CGWCG	1 cut(s)	414
HpyAV	CCTTC	2 cut(s)	706, 856
HpyCH4III	ACNGT	6 cut(s)	26, 362, 513, 913, 979, 1024
HpyCH4IV	ACGT	2 cut(s)	412, 582
HpyCH4V	TGCA	6 cut(s)	70, 305, 416, 464, 662, 770
HpyF10VI	GCNNNNNNNGC	5 cut(s)	311, 470, 740, 752, 848
HpyF3I	CTNAG	5 cut(s)	476, 519, 678, 1002, 1065
HpySE526I	ACGT	2 cut(s)	412, 582
Hsp92II	CATG	3 cut(s)	711, 1033, 1074
Kzo9I	GATC	5 cut(s)	385, 670, 835, 1057, 1098
LguI	GCTCTTC	1 cut(s)	849
LmnI	GCTCC	2 cut(s)	16, 484
Lsp1109I	GCAGC	3 cut(s)	181, 730, 754
LweI	GCATC	1 cut(s)	451
MaeI	CTAG	8 cut(s)	6, 162, 423, 633, 738, 764, 923, 1011
MaeII	ACGT	2 cut(s)	412, 582
MaeIII	GTNAC	2 cut(s)	62, 943
MalI	GATC	5 cut(s)	387, 672, 837, 1059, 1100
MboI	GATC	5 cut(s)	385, 670, 835, 1057, 1098
MboII	GAAGA	7 cut(s)	176, 188, 247, 542, 694, 836, 1032
MhlI	GDGCHC	3 cut(s)	13, 844, 883
MluCI	AATT	6 cut(s)	135, 376, 546, 558, 803, 854
MlyI	GAGTC	1 cut(s)	819
MmeI	TCCRAC	3 cut(s)	311, 462, 573
MnlI	CCTC	9 cut(s)	48, 105, 361, 471, 514, 661, 802, 815, 1087
MseI	TTAA	7 cut(s)	228, 243, 444, 687, 974, 998, 1152
MspCI	CTTAAG	1 cut(s)	1151
MspI	CCGG	2 cut(s)	49, 76
MspR9I	CCNGG	2 cut(s)	50, 344
MvaI	CCWGG	1 cut(s)	344
MvnI	CGCG	1 cut(s)	30
MwoI	GCNNNNNNNGC	5 cut(s)	311, 470, 740, 752, 848
NciI	CCSGG	1 cut(s)	50
NdeII	GATC	5 cut(s)	385, 670, 835, 1057, 1098
NlaIII	CATG	3 cut(s)	711, 1033, 1074
NlaIV	GGNNCC	3 cut(s)	12, 486, 1008
NmeAIII	GCCGAG	1 cut(s)	376
NmuCI	GTSAC	2 cut(s)	62, 943
NruI	TCGCGA	1 cut(s)	30
PceI	AGGCCT	1 cut(s)	371
PciSI	GCTCTTC	1 cut(s)	849
PfeI	GAWTC	2 cut(s)	339, 449
PflFI	GACNNNGTC	1 cut(s)	1022
PflMI	CCANNNNNTGG	1 cut(s)	40
PfoI	TCCNGGA	1 cut(s)	342
PkrI	GCNGC	4 cut(s)	196, 745, 769, 888
PleI	GAGTC	1 cut(s)	819
PpsI	GAGTC	1 cut(s)	819
Psp6I	CCWGG	1 cut(s)	342
PspGI	CCWGG	1 cut(s)	342
PspN4I	GGNNCC	3 cut(s)	12, 486, 1008
PspPI	GGNCC	1 cut(s)	73
PstI	CTGCAG	2 cut(s)	664, 772
PstNI	CAGNNNCTG	1 cut(s)	194
PsyI	GACNNNGTC	1 cut(s)	1022
RruI	TCGCGA	1 cut(s)	30
RsaI	GTAC	5 cut(s)	364, 640, 723, 1138, 1145
RsaNI	GTAC	5 cut(s)	363, 639, 722, 1137, 1144
SapI	GCTCTTC	1 cut(s)	849
SaqAI	TTAA	7 cut(s)	228, 243, 444, 687, 974, 998, 1152
SatI	GCNGC	4 cut(s)	195, 744, 768, 887
Sau3AI	GATC	5 cut(s)	385, 670, 835, 1057, 1098
Sau96I	GGNCC	1 cut(s)	73
ScaI	AGTACT	2 cut(s)	640, 1145
SchI	GAGTC	1 cut(s)	819
ScrFI	CCNGG	2 cut(s)	50, 344
SduI	GDGCHC	3 cut(s)	13, 844, 883
SfaNI	GCATC	1 cut(s)	451
SfcI	CTRYAG	4 cut(s)	294, 660, 768, 792
SinI	GGWCC	1 cut(s)	73
SmlI	CTYRAG	1 cut(s)	1151
SmoI	CTYRAG	1 cut(s)	1151
SpeI	ACTAGT	2 cut(s)	161, 922
Sse9I	AATT	6 cut(s)	135, 376, 546, 558, 803, 854
SseBI	AGGCCT	1 cut(s)	371
SsiI	CCGC	1 cut(s)	887
SspMI	CTAG	8 cut(s)	6, 162, 423, 633, 738, 764, 923, 1011
StuI	AGGCCT	1 cut(s)	371
StyD4I	CCNGG	2 cut(s)	48, 342
StyI	CCWWGG	2 cut(s)	756, 1044
TaaI	ACNGT	6 cut(s)	26, 362, 513, 913, 979, 1024
TaiI	ACGT	2 cut(s)	415, 585
TasI	AATT	6 cut(s)	135, 376, 546, 558, 803, 854
TatI	WGTACW	3 cut(s)	638, 721, 1143
TauI	GCSGC	1 cut(s)	889
TfiI	GAWTC	2 cut(s)	339, 449
Tru1I	TTAA	7 cut(s)	228, 243, 444, 687, 974, 998, 1152
Tru9I	TTAA	7 cut(s)	228, 243, 444, 687, 974, 998, 1152
TscAI	CASTG	1 cut(s)	888
TseFI	GTSAC	2 cut(s)	62, 943
TseI	GCWGC	3 cut(s)	194, 743, 767
Tsp45I	GTSAC	2 cut(s)	62, 943
TspDTI	ATGAA	2 cut(s)	978, 1092
TspGWI	ACGGA	1 cut(s)	380
TspRI	CASTG	1 cut(s)	888
Tth111I	GACNNNGTC	1 cut(s)	1022
Van91I	CCANNNNNTGG	1 cut(s)	40
Vha464I	CTTAAG	1 cut(s)	1151
VpaK11BI	GGWCC	1 cut(s)	73
XapI	RAATTY	4 cut(s)	135, 376, 546, 558
XbaI	TCTAGA	1 cut(s)	737
XspI	CTAG	8 cut(s)	6, 162, 423, 633, 738, 764, 923, 1011
ZrmI	AGTACT	2 cut(s)	640, 1145

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