Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0002285

Physical Location & Seq

Genomic Coordinates Forward (+)

60373344 .. 60412974

Gene Structure 39631 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG458300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1296 bp

ATGTCGTCCCTGGGGGTGCAATTGCATATTCAGGATGATCATGTGATTATGGATAACGGCACACTCCAAGTTACATTATCAAATCCAGGTGGAATTGTTACTGGGATCCATTATAACGGCATTGACAATTTACTTGAAGTTCTCAATGAAGAGGATAATAGAGGGTACTGGGACCTTGTTTGGAGTGAAACGGGAAGTATCGGAACAACCGGAACCTATGATCGAATTATAGGAACAAAATTCACTGTTATAGTGAAAAGTGAAGAACAAGTAGAGATATCATTCACTAGAGAGTGGAATCACGAGGACAAGAATGTCCCGCTAAATATAGACAAAAGGTTTGTAATGCTTCGTAATTCGTCAGGCTTCTACTCGTACGCCATCTACGAGCACTTGAAAGAATGGCCTCCTTTCAACCTTCCCCAAACCAGGATTGTGTTCAAGCTCAGTAAAGAGAAGTTTCAGTACATGGCGATAGCTGATGACAGGCAAAGAAACATGCCCCTTCCTGACGACCGATTACCCGAACGATGCCAAATCCTAAATTCAGATTTCCCAGAAGCAGTCCTTCTTGTCAATCCTATAGAGCCACAATATACGGGAGAGGTGGATGACAAGTACCAATACTCATGCGAGAACCAAAATTTGCGGGTTCACGGTTGGACATGCATGGACCCTCATGTAGGGTTTTGGCAGATAACGCCTAGTGATGAGTTCCGATCCGGCGGACCTCTTAAACAGAACCTCACATCCCACGTCGGTCCTATTTGTCTTGCAATGTTTCTGAGTGCTCACTATTCAGGAGAGGATCTTGTGCTGAAACTTAAACCAGATGAGCCATGGAAGAAAGTTTTCGGCCCTGTTTTTATCTATCTTAATTCTGCATCTGATGCAAAAGATTCATCACCACTCTGGGAAGATGCAAAGAAACAGATGATGACAGAAGTAAAAAGCTGGCCTTATGAGTTTCCAGCTTCCACTGATTTTCCAACGTCAAAGCAACGGGGTAATGTTAGTGGTAGAATACGTGTTGGAGATAGCTTTGTTAGCGACGATCACATTCTCGGCCATGGTGCTTATGTTGGATTGGCACCACCTGGAGATGTTGGATCATGGCAAAGAGATTGCAAGGGTTACCAGTTCTGGACTAGGGCAGATGAGAATGGCTATTACTCTATCAAAGATATACGCGAGGGGAACTATAATCTCTACGCGTGGGTTCCTGGGTTTATCGGAGATTACCGCTATGGTTTAACCATTGACCTAACTCCAGAAAATCGTAATGCTCTACCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000272 GO:0003674 GO:0003824 GO:0005975 GO:0005976 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010393 GO:0016052 GO:0016829 GO:0016835 GO:0016837 GO:0017144 GO:0042737 GO:0043170 GO:0044237 GO:0044238 GO:0044248 GO:0045488 GO:0045490 GO:0071704 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CBM-like Rhamnogal_lyase fn3_3

Protein Analysis

431

Amino Acids

49.24

Weight (kDa)

5.05

Isoelectric Point (pI)

34.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rhamnogal_lyase	PF06045	5 - 203	1.1e-87	Rhamnogalacturonate lyase family
fn3_3	PF14686	357 - 417	5.8e-24	Polysaccharide lyase family 4, domain II

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: OG0002285)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24430 AT4G24430
fragaria_vesca	FvH4_5g34131 FvH4_5g34131 FvH4_5g34131 FvH4_5g34131 FvH4_5g34150
malus_domestica	MD08G1204400.v1.1 MD08G1205000.v1.1
prunus_persica	Prupe.1G536600_v2.0.a1 Prupe.1G536600_v2.0.a1 Prupe.1G536600_v2.0.a1 Prupe.1G536700_v2.0.a1 Prupe.1G536700_v2.0.a1
pyrus_communis	pycom08g17670 pycom08g17720
rosa_chinensis	RchiOBHm_Chr7g0233711 RchiOBHm_Chr7g0233721 RchiOBHm_Chr7g0233731 RchiOBHm_Chr7g0233741
rosa_laevigata	RLG00000001237 RLG00000001239 RLG00000001240
rosa_multiflora	Rmu_sc0000740.1_g000047 Rmu_sc0000740.1_g000058 Rmu_sc0010145.1_g000001 Rmu_sc0011583.1_g000004
rosa_roxburghii	Rroxscaffold_3G00227030 Rroxscaffold_3G00227050 Rroxscaffold_3G00227070
rosa_rugosa	Rorug07G0282300 Rorug07G0282300
rosa_samantha	Rh7AG438600 Rh7AG438700 Rh7BG411300 Rh7CG458200 Rh7CG458300 Rh7CG458400 Rh7DG428200
rosa_wichuraiana	Rw7G036170 Rw7G036180 Rw7G036230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	114
AasI	GACNNNNNNGTC	1 cut(s)	314
AccB1I	GGYRCC	1 cut(s)	1090
AccII	CGCG	2 cut(s)	1191, 1214
AciI	CCGC	4 cut(s)	320, 649, 726, 1243
AclWI	GGATC	5 cut(s)	100, 113, 714, 816, 1117
AcoI	YGGCCR	1 cut(s)	1066
AcsI	RAATTY	3 cut(s)	239, 544, 643
AfaI	GTAC	4 cut(s)	167, 377, 467, 620
AfiI	CCNNNNNNNGG	2 cut(s)	429, 683
AflIII	ACRYGT	2 cut(s)	1027, 1212
AgsI	TTSAA	4 cut(s)	137, 397, 415, 442
AjiI	CACGTC	1 cut(s)	757
AjnI	CCWGG	5 cut(s)	9, 85, 428, 1096, 1222
AloI	GAACNNNNNNTCC	2 cut(s)	734, 766
AluBI	AGCT	5 cut(s)	445, 479, 954, 974, 1041
AluI	AGCT	5 cut(s)	445, 479, 954, 974, 1041
Alw21I	GWGCWC	2 cut(s)	393, 793
AlwI	GGATC	5 cut(s)	100, 113, 714, 816, 1117
AoxI	GGCC	4 cut(s)	404, 856, 956, 1066
ApoI	RAATTY	3 cut(s)	239, 544, 643
ArsI	GACNNNNNNTTYG	2 cut(s)	323, 355
Asp700I	GAANNNNTTC	1 cut(s)	851
AspS9I	GGNCC	5 cut(s)	172, 673, 728, 761, 857
AsuHPI	GGTGA	1 cut(s)	897
AvaII	GGWCC	4 cut(s)	172, 673, 728, 761
BamHI	GGATCC	1 cut(s)	105
BanI	GGYRCC	1 cut(s)	1090
BarI	GAAGNNNNNNTAC	2 cut(s)	449, 481
BauI	CACGAG	1 cut(s)	302
Bbv12I	GWGCWC	2 cut(s)	393, 793
BccI	CCATC	1 cut(s)	389
BceAI	ACGGC	2 cut(s)	73, 133
BciT130I	CCWGG	5 cut(s)	11, 87, 430, 1098, 1224
BclI	TGATCA	1 cut(s)	37
BfaI	CTAG	3 cut(s)	288, 705, 1149
BfmI	CTRYAG	1 cut(s)	582
Bme1390I	CCNGG	5 cut(s)	11, 87, 430, 1098, 1224
Bme18I	GGWCC	4 cut(s)	172, 673, 728, 761
BmgBI	CACGTC	1 cut(s)	757
BmgT120I	GGNCC	5 cut(s)	172, 673, 728, 761, 857
BmiI	GGNNCC	6 cut(s)	107, 173, 214, 675, 1092, 1221
BmrFI	CCNGG	5 cut(s)	11, 87, 430, 1098, 1224
BmrI	ACTGGG	2 cut(s)	111, 178
BmsI	GCATC	4 cut(s)	521, 880, 893, 910
BmuI	ACTGGG	2 cut(s)	111, 178
BpmI	CTGGAG	2 cut(s)	1119, 1254
BsaAI	YACGTR	1 cut(s)	1028
BsaJI	CCNNGG	5 cut(s)	9, 10, 839, 1069, 1223
BsaWI	WCCGGW	1 cut(s)	209
Bsc4I	CCNNNNNNNGG	2 cut(s)	429, 683
Bse1I	ACTGG	3 cut(s)	106, 173, 1138
Bse3DI	GCAATG	1 cut(s)	783
BseBI	CCWGG	5 cut(s)	11, 87, 430, 1098, 1224
BseDI	CCNNGG	5 cut(s)	9, 10, 839, 1069, 1223
BseGI	GGATG	3 cut(s)	40, 616, 749
BseLI	CCNNNNNNNGG	2 cut(s)	429, 683
BseMI	GCAATG	1 cut(s)	783
BseMII	CTCAG	2 cut(s)	460, 776
BseNI	ACTGG	3 cut(s)	106, 173, 1138
Bsh1236I	CGCG	2 cut(s)	1191, 1214
Bsh1285I	CGRYCG	1 cut(s)	517
BshFI	GGCC	4 cut(s)	406, 858, 958, 1068
BshNI	GGYRCC	1 cut(s)	1090
BsiEI	CGRYCG	1 cut(s)	517
BsiHKAI	GWGCWC	2 cut(s)	393, 793
BsiSI	CCGG	2 cut(s)	210, 723
BsiWI	CGTACG	1 cut(s)	375
BslFI	GGGAC	2 cut(s)	185, 302
BslI	CCNNNNNNNGG	2 cut(s)	429, 683
BsmFI	GGGAC	2 cut(s)	185, 302
BsnI	GGCC	4 cut(s)	406, 858, 958, 1068
Bsp1286I	GDGCHC	2 cut(s)	393, 793
Bsp143I	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
Bsp19I	CCATGG	2 cut(s)	839, 1069
BspACI	CCGC	4 cut(s)	320, 649, 726, 1243
BspANI	GGCC	4 cut(s)	406, 858, 958, 1068
BspCNI	CTCAG	2 cut(s)	459, 777
BspFNI	CGCG	2 cut(s)	1191, 1214
BspLI	GGNNCC	6 cut(s)	107, 173, 214, 675, 1092, 1221
BspPI	GGATC	5 cut(s)	100, 113, 714, 816, 1117
BspT107I	GGYRCC	1 cut(s)	1090
BsrDI	GCAATG	1 cut(s)	783
BsrI	ACTGG	3 cut(s)	106, 173, 1138
BssECI	CCNNGG	5 cut(s)	9, 10, 839, 1069, 1223
BssMI	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
BssSI	CACGAG	1 cut(s)	302
BssT1I	CCWWGG	2 cut(s)	839, 1069
Bst2BI	CACGAG	1 cut(s)	302
Bst2UI	CCWGG	5 cut(s)	11, 87, 430, 1098, 1224
Bst4CI	ACNGT	2 cut(s)	247, 659
Bst6I	CTCTTC	1 cut(s)	144
BstAPI	GCANNNNNTGC	1 cut(s)	890
BstBAI	YACGTR	1 cut(s)	1028
BstC8I	GCNNGC	1 cut(s)	956
BstDEI	CTNAG	2 cut(s)	446, 785
BstDSI	CCRYGG	2 cut(s)	839, 1069
BstEII	GGTNACC	1 cut(s)	1133
BstENI	CCTNNNNNAGG	1 cut(s)	681
BstF5I	GGATG	3 cut(s)	40, 616, 749
BstFNI	CGCG	2 cut(s)	1191, 1214
BstKTI	GATC	7 cut(s)	40, 108, 223, 722, 811, 1057, 1112
BstMBI	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
BstMCI	CGRYCG	1 cut(s)	517
BstMWI	GCNNNNNNNGC	3 cut(s)	700, 890, 1047
BstNI	CCWGG	5 cut(s)	11, 87, 430, 1098, 1224
BstNSI	RCATGY	2 cut(s)	502, 669
BstPI	GGTNACC	1 cut(s)	1133
BstSCI	CCNGG	5 cut(s)	9, 85, 428, 1096, 1222
BstSFI	CTRYAG	1 cut(s)	582
BstUI	CGCG	2 cut(s)	1191, 1214
BstX2I	RGATCY	2 cut(s)	105, 808
BstYI	RGATCY	2 cut(s)	105, 808
BsuRI	GGCC	4 cut(s)	406, 858, 958, 1068
BtgI	CCRYGG	2 cut(s)	839, 1069
BtrI	CACGTC	1 cut(s)	757
BtsCI	GGATG	3 cut(s)	40, 616, 749
BtsIMutI	CAGTG	2 cut(s)	243, 978
Cac8I	GCNNGC	1 cut(s)	956
Cfr13I	GGNCC	5 cut(s)	172, 673, 728, 761, 857
Csp6I	GTAC	4 cut(s)	166, 376, 466, 619
CviQI	GTAC	4 cut(s)	166, 376, 466, 619
DdeI	CTNAG	2 cut(s)	446, 785
DpnI	GATC	7 cut(s)	39, 107, 222, 721, 810, 1056, 1111
DpnII	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
DrdI	GACNNNNNNGTC	1 cut(s)	314
DseDI	GACNNNNNNGTC	1 cut(s)	314
EaeI	YGGCCR	1 cut(s)	1066
Eam1104I	CTCTTC	1 cut(s)	144
EarI	CTCTTC	1 cut(s)	144
EciI	GGCGGA	1 cut(s)	741
Eco130I	CCWWGG	2 cut(s)	839, 1069
Eco32I	GATATC	1 cut(s)	279
Eco47I	GGWCC	4 cut(s)	172, 673, 728, 761
Eco91I	GGTNACC	1 cut(s)	1133
EcoNI	CCTNNNNNAGG	1 cut(s)	681
EcoO109I	RGGNCCY	1 cut(s)	172
EcoO65I	GGTNACC	1 cut(s)	1133
EcoRII	CCWGG	5 cut(s)	9, 85, 428, 1096, 1222
EcoRV	GATATC	1 cut(s)	279
EcoT14I	CCWWGG	2 cut(s)	839, 1069
EcoT22I	ATGCAT	1 cut(s)	671
ErhI	CCWWGG	2 cut(s)	839, 1069
FalI	AAGNNNNNCTT	4 cut(s)	552, 584, 943, 975
FaqI	GGGAC	2 cut(s)	185, 302
FauI	CCCGC	2 cut(s)	327, 642
FbaI	TGATCA	1 cut(s)	37
FokI	GGATG	3 cut(s)	47, 623, 736
FspBI	CTAG	3 cut(s)	288, 705, 1149
GsuI	CTGGAG	2 cut(s)	1119, 1254
HaeIII	GGCC	4 cut(s)	406, 858, 958, 1068
HapII	CCGG	2 cut(s)	210, 723
HinfI	GANTC	2 cut(s)	298, 899
HpaII	CCGG	2 cut(s)	210, 723
HphI	GGTGA	1 cut(s)	897
Hpy166II	GTNNAC	1 cut(s)	655
Hpy188I	TCNGA	6 cut(s)	203, 550, 719, 786, 889, 1235
Hpy188III	TCNNGA	6 cut(s)	32, 302, 509, 801, 1144, 1271
Hpy8I	GTNNAC	1 cut(s)	655
Hpy99I	CGWCG	2 cut(s)	761, 1055
HpyAV	CCTTC	3 cut(s)	428, 515, 578
HpyCH4III	ACNGT	2 cut(s)	247, 659
HpyCH4IV	ACGT	3 cut(s)	756, 992, 1027
HpyCH4V	TGCA	8 cut(s)	19, 25, 669, 776, 884, 893, 923, 1128
HpyF10VI	GCNNNNNNNGC	3 cut(s)	700, 890, 1047
HpyF3I	CTNAG	2 cut(s)	446, 785
HpySE526I	ACGT	3 cut(s)	756, 992, 1027
Ksp22I	TGATCA	1 cut(s)	37
Kzo9I	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
LweI	GCATC	4 cut(s)	521, 880, 893, 910
MaeI	CTAG	3 cut(s)	288, 705, 1149
MaeII	ACGT	3 cut(s)	756, 992, 1027
MaeIII	GTNAC	3 cut(s)	70, 97, 1133
MalI	GATC	7 cut(s)	39, 107, 222, 721, 810, 1056, 1111
MboI	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
MboII	GAAGA	4 cut(s)	161, 275, 856, 929
MfeI	CAATTG	1 cut(s)	20
MflI	RGATCY	2 cut(s)	105, 808
MhlI	GDGCHC	2 cut(s)	393, 793
MluCI	AATT	9 cut(s)	20, 93, 127, 225, 239, 355, 544, 643, 877
MluI	ACGCGT	1 cut(s)	1212
MmeI	TCCRAC	5 cut(s)	641, 1012, 1013, 1063, 1087
Mph1103I	ATGCAT	1 cut(s)	671
MroXI	GAANNNNTTC	1 cut(s)	851
MseI	TTAA	4 cut(s)	735, 825, 876, 1253
MspI	CCGG	2 cut(s)	210, 723
MspR9I	CCNGG	5 cut(s)	11, 87, 430, 1098, 1224
MunI	CAATTG	1 cut(s)	20
MvaI	CCWGG	5 cut(s)	11, 87, 430, 1098, 1224
MvnI	CGCG	2 cut(s)	1191, 1214
MwoI	GCNNNNNNNGC	3 cut(s)	700, 890, 1047
NcoI	CCATGG	2 cut(s)	839, 1069
NdeII	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
NlaIV	GGNNCC	6 cut(s)	107, 173, 214, 675, 1092, 1221
NmeAIII	GCCGAG	1 cut(s)	1044
NsiI	ATGCAT	1 cut(s)	671
NspI	RCATGY	2 cut(s)	502, 669
PasI	CCCWGGG	1 cut(s)	10
PcsI	WCGNNNNNNNCGW	1 cut(s)	384
PdmI	GAANNNNTTC	1 cut(s)	851
PfeI	GAWTC	2 cut(s)	298, 899
Pfl23II	CGTACG	1 cut(s)	375
Ppu21I	YACGTR	1 cut(s)	1028
PpuMI	RGGWCCY	1 cut(s)	172
PsiI	TTATAA	1 cut(s)	114
Psp5II	RGGWCCY	1 cut(s)	172
Psp6I	CCWGG	5 cut(s)	9, 85, 428, 1096, 1222
PspEI	GGTNACC	1 cut(s)	1133
PspGI	CCWGG	5 cut(s)	9, 85, 428, 1096, 1222
PspLI	CGTACG	1 cut(s)	375
PspN4I	GGNNCC	6 cut(s)	107, 173, 214, 675, 1092, 1221
PspPI	GGNCC	5 cut(s)	172, 673, 728, 761, 857
PspPPI	RGGWCCY	1 cut(s)	172
PsuI	RGATCY	2 cut(s)	105, 808
RsaI	GTAC	4 cut(s)	167, 377, 467, 620
RsaNI	GTAC	4 cut(s)	166, 376, 466, 619
SaqAI	TTAA	4 cut(s)	735, 825, 876, 1253
Sau3AI	GATC	7 cut(s)	37, 105, 220, 719, 808, 1054, 1109
Sau96I	GGNCC	5 cut(s)	172, 673, 728, 761, 857
ScrFI	CCNGG	5 cut(s)	11, 87, 430, 1098, 1224
SduI	GDGCHC	2 cut(s)	393, 793
SfaNI	GCATC	4 cut(s)	521, 880, 893, 910
SfcI	CTRYAG	1 cut(s)	582
SinI	GGWCC	4 cut(s)	172, 673, 728, 761
Sse9I	AATT	9 cut(s)	20, 93, 127, 225, 239, 355, 544, 643, 877
SsiI	CCGC	4 cut(s)	320, 649, 726, 1243
SspMI	CTAG	3 cut(s)	288, 705, 1149
StyD4I	CCNGG	5 cut(s)	9, 85, 428, 1096, 1222
StyI	CCWWGG	2 cut(s)	839, 1069
TaaI	ACNGT	2 cut(s)	247, 659
TaiI	ACGT	3 cut(s)	759, 995, 1030
TaqI	TCGA	1 cut(s)	223
TaqII	GACCGA	2 cut(s)	531, 749
TasI	AATT	9 cut(s)	20, 93, 127, 225, 239, 355, 544, 643, 877
TatI	WGTACW	1 cut(s)	465
TfiI	GAWTC	2 cut(s)	298, 899
Tru1I	TTAA	4 cut(s)	735, 825, 876, 1253
Tru9I	TTAA	4 cut(s)	735, 825, 876, 1253
TscAI	CASTG	2 cut(s)	250, 985
TspDTI	ATGAA	2 cut(s)	162, 891
TspRI	CASTG	2 cut(s)	250, 985
VpaK11BI	GGWCC	4 cut(s)	172, 673, 728, 761
XagI	CCTNNNNNAGG	1 cut(s)	681
XapI	RAATTY	3 cut(s)	239, 544, 643
XceI	RCATGY	2 cut(s)	502, 669
XcmI	CCANNNNNNNNNTGG	1 cut(s)	837
XmnI	GAANNNNTTC	1 cut(s)	851
XspI	CTAG	3 cut(s)	288, 705, 1149
Zsp2I	ATGCAT	1 cut(s)	671

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