Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0002146

Physical Location & Seq

Genomic Coordinates Reverse (-)

51945000 .. 51947766

Gene Structure 2767 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG360300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1137 bp

ATGGTCTCGACCTTGGCTATCCAATGTGTTTGCTTAGTGCTATTGCTTGTAACCATTAACAAAGTTCAAGCTCAGTCCAAAGTTTACAATGTACTGGAACACGGGGCCGTTGCAGATGGAAAATTTGATAACAGCAAGGTCTTGAGTGAAGTGTGGAACCAATCCTGTCATCAAAACACTGGAGGTGGTGTTATTTTATTTCCACAAGGGACGTTCATGGTGGCTCCGGTGGTTCTACAAGGGCATTGCAAGGGACCAATGGAGTTGCAGGTACAGGGAACCATACAAGCTCCCGTGGACGTCCAATCTTCGGTTGGTGTGGACCATTGGATCAGCTTCAGATATGTTGAACACTTCGTAATTCATGGTGGTGGATTGTTGGACGGCCAAGGAGCCTCTGCTTGGGGAAAGAGCAAGGCACTTCCCACTACATTGAGGTTAGATTTTGTTTCTCATGCAAGCATCCGCCAAATAACATTTCTCAACAGCAAGAACACCCACATCAAAATTTTCACATGCAGTGTTGTAGTAATTAGCAACATCAACATATCGGCTCCCGGTGACAGTCCCAACACTGACGGAATCAAAGTAAGTAATTCCAAATACATCCAAATCTTGGATTCAGTGATATCCGTAGGGGACGACTGCATAGCCTGCCTTCCCAATTCAAAGAACATCAACATAACTAGAGTTCACTGTGGACCTGGACATGGATTTAGCATCGGAAGCATTTCTCGTGGTACTGTTACTAATTTGAACATAAGAAACAGCAGTTTACTTGGTACTCAGAATGGAGTGAGAATCAAGACAAAGGCTTATTCATCTCAGCCAGGCAACGTTGCATATGTTACATTTGAGCACATTGAAATGGATAATGTCGGCAACCCCATCATCATTGATCAAAACTATTGCCCTGATCACGGATGTAGCGGAAAGGTACAGATTAATAATGTTAAGTTTAGTAACAATGCTAGCATGCTTAATCATGCAATACTAATCTATGTTGTTGCCTGCAGGAATCCTCACAAGTTCAGATTAAAAATGTTAAGTTTAATAACATTTGGGGAACTTCAAGAACAAAGACTGCAGTTAATTTCAACTGCAGCCAAAGTAAACCTTGCCATGAGATTGAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

378

Amino Acids

40.93

Weight (kDa)

8.92

Isoelectric Point (pI)

37.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	29 - 257	3.5e-08	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	65 - 340	3.8e-71	Glycosyl hydrolases family 28

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: OG0002146)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12491 FvH4_1g12500 FvH4_3g23740 FvH4_4g28770
malus_domestica	MD03G1196500.v1.1 MD11G1207000.v1.1
prunus_persica	Prupe.4G218900_v2.0.a1 Prupe.4G228600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0100401 RchiOBHm_Chr4g0436881 RchiOBHm_Chr5g0041901 RchiOBHm_Chr5g0041941
rosa_laevigata	RLG00000006489 RLG00000016970 RLG00000016994 RLG00000034104
rosa_multiflora	Rmu_sc0001095.1_g000011 Rmu_sc0001464.1_g000018 Rmu_sc0009443.1_g000011 Rmu_sc0010997.1_g000006
rosa_roxburghii	Rroxscaffold_2G00142280 Rroxscaffold_5G00377950
rosa_rugosa	Rorug02G0087800 Rorug04G0297000 Rorug05G0197100
rosa_samantha	Rh2AG137300 Rh2AG137500 Rh2BG140500 Rh2BG140700 Rh2CG142600 Rh2DG142500 Rh4AG351300 Rh4BG360300 Rh4CG374600 Rh4DG354600 Rh5AG281700 Rh5AG281900 Rh5BG287500 Rh5CG318800 Rh5DG296100 Rh5DG296400
rosa_wichuraiana	Rw0G001350 Rw2G010740 Rw4G030760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	303
Acc36I	ACCTGC	1 cut(s)	259
AccB7I	CCANNNNNTGG	1 cut(s)	616
AciI	CCGC	2 cut(s)	466, 930
AclI	AACGTT	1 cut(s)	837
AclWI	GGATC	1 cut(s)	338
AcoI	YGGCCR	1 cut(s)	385
AcsI	RAATTY	2 cut(s)	122, 507
AcuI	CTGAAG	1 cut(s)	322
AcyI	GRCGYC	1 cut(s)	300
AfaI	GTAC	5 cut(s)	93, 273, 742, 784, 939
AfiI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
AgsI	TTSAA	7 cut(s)	68, 350, 669, 757, 866, 1073, 1098
AjnI	CCWGG	2 cut(s)	703, 829
AjuI	GAANNNNNNNTTGG	2 cut(s)	462, 494
AluBI	AGCT	4 cut(s)	71, 290, 336, 1134
AluI	AGCT	4 cut(s)	71, 290, 336, 1134
Alw21I	GWGCWC	1 cut(s)	861
Alw26I	GTCTC	1 cut(s)	10
AlwI	GGATC	1 cut(s)	338
AoxI	GGCC	2 cut(s)	105, 385
ApeKI	GCWGC	1 cut(s)	1103
ApoI	RAATTY	2 cut(s)	122, 507
AseI	ATTAAT	1 cut(s)	945
Asp700I	GAANNNNTTC	1 cut(s)	730
AspS9I	GGNCC	4 cut(s)	105, 254, 322, 701
AsuC2I	CCSGG	1 cut(s)	558
AsuHPI	GGTGA	1 cut(s)	572
AsuNHI	GCTAGC	1 cut(s)	971
AvaII	GGWCC	3 cut(s)	254, 322, 701
BauI	CACGAG	1 cut(s)	735
Bbv12I	GWGCWC	1 cut(s)	861
BbvI	GCAGC	1 cut(s)	1115
BccI	CCATC	2 cut(s)	110, 896
BceAI	ACGGC	2 cut(s)	92, 400
BciT130I	CCWGG	2 cut(s)	705, 831
BclI	TGATCA	2 cut(s)	898, 916
BcnI	CCSGG	1 cut(s)	558
BcoDI	GTCTC	1 cut(s)	10
BfaI	CTAG	2 cut(s)	687, 972
BfmI	CTRYAG	3 cut(s)	1012, 1085, 1101
BfuAI	ACCTGC	1 cut(s)	259
BisI	GCNGC	1 cut(s)	1104
BlsI	GCNGC	1 cut(s)	1105
Bme1390I	CCNGG	3 cut(s)	558, 705, 831
Bme18I	GGWCC	3 cut(s)	254, 322, 701
BmgT120I	GGNCC	4 cut(s)	105, 254, 322, 701
BmiI	GGNNCC	7 cut(s)	106, 158, 225, 255, 280, 394, 555
BmrFI	CCNGG	3 cut(s)	558, 705, 831
BmsI	GCATC	2 cut(s)	471, 729
BmtI	GCTAGC	1 cut(s)	975
BpmI	CTGGAG	1 cut(s)	201
BpuEI	CTTGAG	1 cut(s)	163
BpuMI	CCSGG	1 cut(s)	558
BsaHI	GRCGYC	1 cut(s)	300
BsaI	GGTCTC	1 cut(s)	10
BsaJI	CCNNGG	3 cut(s)	12, 294, 388
BsaWI	WCCGGW	1 cut(s)	226
BsaXI	ACNNNNNCTCC	2 cut(s)	174, 204
Bsc4I	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
Bse1I	ACTGG	2 cut(s)	99, 184
Bse3DI	GCAATG	1 cut(s)	244
BseBI	CCWGG	2 cut(s)	705, 831
BseDI	CCNNGG	3 cut(s)	12, 294, 388
BseGI	GGATG	3 cut(s)	462, 606, 929
BseLI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
BseMI	GCAATG	1 cut(s)	244
BseMII	CTCAG	3 cut(s)	86, 800, 839
BseNI	ACTGG	2 cut(s)	99, 184
BseXI	GCAGC	1 cut(s)	1115
BshFI	GGCC	2 cut(s)	107, 387
BsiHKAI	GWGCWC	1 cut(s)	861
BsiSI	CCGG	2 cut(s)	227, 558
BslFI	GGGAC	4 cut(s)	223, 267, 552, 653
BslI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
BsmAI	GTCTC	1 cut(s)	10
BsmFI	GGGAC	4 cut(s)	223, 267, 552, 653
BsnI	GGCC	2 cut(s)	107, 387
Bso31I	GGTCTC	1 cut(s)	10
Bsp1286I	GDGCHC	1 cut(s)	861
Bsp143I	GATC	3 cut(s)	330, 898, 916
BspACI	CCGC	2 cut(s)	466, 930
BspANI	GGCC	2 cut(s)	107, 387
BspCNI	CTCAG	3 cut(s)	85, 799, 838
BspLI	GGNNCC	7 cut(s)	106, 158, 225, 255, 280, 394, 555
BspMAI	CTGCAG	3 cut(s)	1016, 1089, 1105
BspMI	ACCTGC	1 cut(s)	259
BspOI	GCTAGC	1 cut(s)	975
BspPI	GGATC	1 cut(s)	338
BspTNI	GGTCTC	1 cut(s)	10
BsrDI	GCAATG	1 cut(s)	244
BsrI	ACTGG	2 cut(s)	99, 184
BssECI	CCNNGG	3 cut(s)	12, 294, 388
BssMI	GATC	3 cut(s)	330, 898, 916
BssNI	GRCGYC	1 cut(s)	300
BssSI	CACGAG	1 cut(s)	735
BssT1I	CCWWGG	2 cut(s)	12, 388
Bst2BI	CACGAG	1 cut(s)	735
Bst2UI	CCWGG	2 cut(s)	705, 831
Bst4CI	ACNGT	3 cut(s)	566, 698, 745
BstACI	GRCGYC	1 cut(s)	300
BstAPI	GCANNNNNTGC	1 cut(s)	654
BstC8I	GCNNGC	5 cut(s)	460, 655, 973, 977, 1012
BstDEI	CTNAG	4 cut(s)	34, 72, 786, 825
BstDSI	CCRYGG	1 cut(s)	294
BstF5I	GGATG	3 cut(s)	462, 606, 929
BstKTI	GATC	3 cut(s)	333, 901, 919
BstMAI	GTCTC	1 cut(s)	10
BstMBI	GATC	3 cut(s)	330, 898, 916
BstMWI	GCNNNNNNNGC	2 cut(s)	654, 726
BstNI	CCWGG	2 cut(s)	705, 831
BstNSI	RCATGY	2 cut(s)	519, 979
BstSCI	CCNGG	3 cut(s)	556, 703, 829
BstSFI	CTRYAG	3 cut(s)	1012, 1085, 1101
BstV1I	GCAGC	1 cut(s)	1115
BsuRI	GGCC	2 cut(s)	107, 387
BtgI	CCRYGG	1 cut(s)	294
BtsCI	GGATG	3 cut(s)	462, 606, 929
BtsI	GCAGTG	1 cut(s)	526
BtsIMutI	CAGTG	5 cut(s)	177, 526, 573, 630, 694
BveI	ACCTGC	1 cut(s)	259
Cac8I	GCNNGC	5 cut(s)	460, 655, 973, 977, 1012
Cfr13I	GGNCC	4 cut(s)	105, 254, 322, 701
Csp6I	GTAC	5 cut(s)	92, 272, 741, 783, 938
CviAII	CATG	8 cut(s)	217, 365, 455, 516, 710, 976, 986, 1123
CviQI	GTAC	5 cut(s)	92, 272, 741, 783, 938
DdeI	CTNAG	4 cut(s)	34, 72, 786, 825
DpnI	GATC	3 cut(s)	332, 900, 918
DpnII	GATC	3 cut(s)	330, 898, 916
EaeI	YGGCCR	1 cut(s)	385
EciI	GGCGGA	1 cut(s)	455
Eco130I	CCWWGG	2 cut(s)	12, 388
Eco31I	GGTCTC	1 cut(s)	10
Eco32I	GATATC	1 cut(s)	630
Eco47I	GGWCC	3 cut(s)	254, 322, 701
Eco57I	CTGAAG	1 cut(s)	322
EcoRII	CCWGG	2 cut(s)	703, 829
EcoRV	GATATC	1 cut(s)	630
EcoT14I	CCWWGG	2 cut(s)	12, 388
ErhI	CCWWGG	2 cut(s)	12, 388
FaeI	CATG	8 cut(s)	220, 368, 458, 519, 713, 979, 989, 1126
FalI	AAGNNNNNCTT	2 cut(s)	1101, 1133
FaqI	GGGAC	4 cut(s)	223, 267, 552, 653
FatI	CATG	8 cut(s)	216, 364, 454, 515, 709, 975, 985, 1122
FauNDI	CATATG	1 cut(s)	844
FbaI	TGATCA	2 cut(s)	898, 916
Fnu4HI	GCNGC	1 cut(s)	1104
FokI	GGATG	3 cut(s)	449, 593, 936
Fsp4HI	GCNGC	1 cut(s)	1104
FspBI	CTAG	2 cut(s)	687, 972
GluI	GCNGC	1 cut(s)	1104
GsuI	CTGGAG	1 cut(s)	201
HaeIII	GGCC	2 cut(s)	107, 387
HapII	CCGG	2 cut(s)	227, 558
Hin1I	GRCGYC	1 cut(s)	300
Hin1II	CATG	8 cut(s)	220, 368, 458, 519, 713, 979, 989, 1126
HinfI	GANTC	4 cut(s)	582, 620, 801, 1018
HpaII	CCGG	2 cut(s)	227, 558
HphI	GGTGA	1 cut(s)	572
Hpy166II	GTNNAC	7 cut(s)	85, 298, 322, 694, 701, 776, 1114
Hpy188I	TCNGA	4 cut(s)	341, 725, 789, 1034
Hpy188III	TCNNGA	4 cut(s)	7, 142, 805, 1073
Hpy8I	GTNNAC	7 cut(s)	85, 298, 322, 694, 701, 776, 1114
HpyAV	CCTTC	1 cut(s)	668
HpyCH4III	ACNGT	3 cut(s)	566, 698, 745
HpyCH4IV	ACGT	3 cut(s)	212, 300, 837
HpyF10VI	GCNNNNNNNGC	2 cut(s)	654, 726
HpyF3I	CTNAG	4 cut(s)	34, 72, 786, 825
HpySE526I	ACGT	3 cut(s)	212, 300, 837
Hsp92I	GRCGYC	1 cut(s)	300
Hsp92II	CATG	8 cut(s)	220, 368, 458, 519, 713, 979, 989, 1126
Ksp22I	TGATCA	2 cut(s)	898, 916
Kzo9I	GATC	3 cut(s)	330, 898, 916
LmnI	GCTCC	4 cut(s)	229, 295, 392, 559
Lsp1109I	GCAGC	1 cut(s)	1115
LweI	GCATC	2 cut(s)	471, 729
MaeI	CTAG	2 cut(s)	687, 972
MaeII	ACGT	3 cut(s)	212, 300, 837
MaeIII	GTNAC	5 cut(s)	49, 560, 745, 847, 962
MalI	GATC	3 cut(s)	332, 900, 918
MboI	GATC	3 cut(s)	330, 898, 916
MboII	GAAGA	1 cut(s)	300
MhlI	GDGCHC	1 cut(s)	861
MluCI	AATT	8 cut(s)	122, 360, 507, 531, 595, 664, 751, 1092
MmeI	TCCRAC	1 cut(s)	360
MnlI	CCTC	4 cut(s)	176, 406, 429, 1032
MroXI	GAANNNNTTC	1 cut(s)	730
MseI	TTAA	8 cut(s)	57, 945, 954, 981, 1037, 1046, 1052, 1091
MslI	CAYNNNNRTG	2 cut(s)	369, 866
MspI	CCGG	2 cut(s)	227, 558
MspR9I	CCNGG	3 cut(s)	558, 705, 831
MvaI	CCWGG	2 cut(s)	705, 831
MwoI	GCNNNNNNNGC	2 cut(s)	654, 726
NciI	CCSGG	1 cut(s)	558
NdeI	CATATG	1 cut(s)	844
NdeII	GATC	3 cut(s)	330, 898, 916
NheI	GCTAGC	1 cut(s)	971
NlaIII	CATG	8 cut(s)	220, 368, 458, 519, 713, 979, 989, 1126
NlaIV	GGNNCC	7 cut(s)	106, 158, 225, 255, 280, 394, 555
NmuCI	GTSAC	1 cut(s)	560
NspI	RCATGY	2 cut(s)	519, 979
PaeI	GCATGC	1 cut(s)	979
PdmI	GAANNNNTTC	1 cut(s)	730
PfeI	GAWTC	4 cut(s)	582, 620, 801, 1018
PflMI	CCANNNNNTGG	1 cut(s)	616
PkrI	GCNGC	1 cut(s)	1105
PshBI	ATTAAT	1 cut(s)	945
Psp1406I	AACGTT	1 cut(s)	837
Psp6I	CCWGG	2 cut(s)	703, 829
PspGI	CCWGG	2 cut(s)	703, 829
PspN4I	GGNNCC	7 cut(s)	106, 158, 225, 255, 280, 394, 555
PspPI	GGNCC	4 cut(s)	105, 254, 322, 701
PstI	CTGCAG	3 cut(s)	1016, 1089, 1105
RsaI	GTAC	5 cut(s)	93, 273, 742, 784, 939
RsaNI	GTAC	5 cut(s)	92, 272, 741, 783, 938
RseI	CAYNNNNRTG	2 cut(s)	369, 866
SaqAI	TTAA	8 cut(s)	57, 945, 954, 981, 1037, 1046, 1052, 1091
SatI	GCNGC	1 cut(s)	1104
Sau3AI	GATC	3 cut(s)	330, 898, 916
Sau96I	GGNCC	4 cut(s)	105, 254, 322, 701
SbfI	CCTGCAGG	1 cut(s)	1016
ScrFI	CCNGG	3 cut(s)	558, 705, 831
SdaI	CCTGCAGG	1 cut(s)	1016
SduI	GDGCHC	1 cut(s)	861
SfaNI	GCATC	2 cut(s)	471, 729
SfcI	CTRYAG	3 cut(s)	1012, 1085, 1101
SinI	GGWCC	3 cut(s)	254, 322, 701
SmiMI	CAYNNNNRTG	2 cut(s)	369, 866
SmlI	CTYRAG	1 cut(s)	142
SmoI	CTYRAG	1 cut(s)	142
SphI	GCATGC	1 cut(s)	979
Sse8387I	CCTGCAGG	1 cut(s)	1016
Sse9I	AATT	8 cut(s)	122, 360, 507, 531, 595, 664, 751, 1092
SsiI	CCGC	2 cut(s)	466, 930
SspMI	CTAG	2 cut(s)	687, 972
StyD4I	CCNGG	3 cut(s)	556, 703, 829
StyI	CCWWGG	2 cut(s)	12, 388
TaaI	ACNGT	3 cut(s)	566, 698, 745
TaiI	ACGT	3 cut(s)	215, 303, 840
TaqI	TCGA	1 cut(s)	8
TasI	AATT	8 cut(s)	122, 360, 507, 531, 595, 664, 751, 1092
TatI	WGTACW	1 cut(s)	91
TfiI	GAWTC	4 cut(s)	582, 620, 801, 1018
Tru1I	TTAA	8 cut(s)	57, 945, 954, 981, 1037, 1046, 1052, 1091
Tru9I	TTAA	8 cut(s)	57, 945, 954, 981, 1037, 1046, 1052, 1091
TscAI	CASTG	5 cut(s)	184, 526, 580, 630, 701
TseFI	GTSAC	1 cut(s)	560
TseI	GCWGC	1 cut(s)	1103
Tsp45I	GTSAC	1 cut(s)	560
TspDTI	ATGAA	3 cut(s)	205, 353, 810
TspGWI	ACGGA	3 cut(s)	594, 622, 936
TspRI	CASTG	5 cut(s)	184, 526, 580, 630, 701
Van91I	CCANNNNNTGG	1 cut(s)	616
VpaK11BI	GGWCC	3 cut(s)	254, 322, 701
VspI	ATTAAT	1 cut(s)	945
XapI	RAATTY	2 cut(s)	122, 507
XceI	RCATGY	2 cut(s)	519, 979
XcmI	CCANNNNNNNNNTGG	1 cut(s)	311
XmnI	GAANNNNTTC	1 cut(s)	730
XspI	CTAG	2 cut(s)	687, 972
ZraI	GACGTC	1 cut(s)	301

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