Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0002146

Physical Location & Seq

Genomic Coordinates Reverse (-)

58470638 .. 58476412

Gene Structure 5775 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00377950.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1161 bp

ATGGTCTCGACCTTGGCTATCCAATGTGTTTACTTAGTGCTATTGCTTGTAACCATTAACAAAGTTCAAGCTCAGTCCAAAGTTTACAATGTACTGGAACACGGGGCCGTTGCAGATGGAAAATTTGATAACAGCAAGGTCTTGAGTGAAGTATGGAACCAATCCTGTCATCAAAACACTGGAGGTGGTGTTATTTTATTTCCACAAGGGACGTTCATGGTGGCAACGGTGGTTCTACAAGGGCATTGCAAGGGACCAATGGAGTTGCAGGTACGGGGAACCCTACAAGCTCCCGTGGACGTCCAATCTTCGGTTGGTGTGGACCATTGGATCAGCTTCAGATATGTTGAACACTTCGTAATTCATGGTGGTGGATTGTTGGACGGCCAAGGAGCCTCTGCTTGGGGAAAGAGCAAGGCACTTCCCACTACATTGAGGTTAGATTTTGTTTCTCATGCAAGCATCCGCCAAATAACATTTCTCAACAGCAAGAACACCCACATCAAAATTTTCACATGCAGTGTTGTAGTAATTAGCAACATCAACATATCGGCTCCCGGTGACAGTCCCAACACTGACGGAATCAAAGTAAGTAATTCCAAATACATCCAAATCTTGGATTCTTTGATATCCGTAGGGGACGACTGCATAGCCTGCCTTCCCAATTCAAAGAACATCAACATAACTAGAGTTCACTGTGGACCTGGACATGGATTTAGCATCGGAAGCATTTCTCGTGGTGCTGTTACTAATTTGAACATAAGAAACAGCAGTTTAGTTGGTACTCAGAATGGAGTGAGAATCAAGACAAAGGCTTATCCATCTCAGCCAGGCAACGTTGCATATATTACATTTGAGCACATTGAAATGGATAATGTCGGCAACCCCATCATCATTGATCAAAACTATTGCCCTGATCACGGATGTAGCGGAAAGGAATCCTCACAAGTTCAGATTAAAAATATTAAGTTTAATAACATTTGGGGAACTTCAAGAACAAAGACTGCAGTTAATTTCAACTGCAGCCAAAGTAAACCTTGCCATGAGATTGAGCTGAGAGACATCAACCTAAATTATAGAGACGGAGGACCTGCGAATTCGTCATGTTCATATGTGGATGGCAAAGCTTATGGCAAACAAAACCCTCCTTCTTGCCTATAA

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

386

Amino Acids

41.73

Weight (kDa)

8.62

Isoelectric Point (pI)

41.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	29 - 256	5.8e-07	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	65 - 374	5.6e-85	Glycosyl hydrolases family 28

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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	2 cut(s)	259, 1099
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	3 cut(s)	122, 507, 1096
AcuI	CTGAAG	1 cut(s)	322
AcyI	GRCGYC	1 cut(s)	300
AfaI	GTAC	3 cut(s)	93, 273, 784
AfiI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
AgsI	TTSAA	7 cut(s)	68, 350, 669, 757, 866, 993, 1018
AjnI	CCWGG	2 cut(s)	703, 829
AjuI	GAANNNNNNNTTGG	2 cut(s)	462, 494
AluBI	AGCT	5 cut(s)	71, 290, 336, 1054, 1127
AluI	AGCT	5 cut(s)	71, 290, 336, 1054, 1127
Alw21I	GWGCWC	1 cut(s)	861
Alw26I	GTCTC	3 cut(s)	10, 1053, 1074
AlwI	GGATC	1 cut(s)	338
AoxI	GGCC	2 cut(s)	105, 385
ApeKI	GCWGC	1 cut(s)	1023
ApoI	RAATTY	3 cut(s)	122, 507, 1096
Asp700I	GAANNNNTTC	1 cut(s)	730
AspS9I	GGNCC	5 cut(s)	105, 254, 322, 701, 1088
AsuC2I	CCSGG	1 cut(s)	558
AsuHPI	GGTGA	1 cut(s)	572
AvaII	GGWCC	4 cut(s)	254, 322, 701, 1088
BauI	CACGAG	1 cut(s)	735
Bbv12I	GWGCWC	1 cut(s)	861
BbvI	GCAGC	1 cut(s)	1035
BccI	CCATC	4 cut(s)	110, 829, 896, 1112
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	3 cut(s)	10, 1053, 1074
BfaI	CTAG	1 cut(s)	687
BfmI	CTRYAG	2 cut(s)	1005, 1021
BfuAI	ACCTGC	2 cut(s)	259, 1099
BisI	GCNGC	1 cut(s)	1024
BlsI	GCNGC	1 cut(s)	1025
Bme1390I	CCNGG	3 cut(s)	558, 705, 831
Bme18I	GGWCC	4 cut(s)	254, 322, 701, 1088
BmgT120I	GGNCC	5 cut(s)	105, 254, 322, 701, 1088
BmiI	GGNNCC	6 cut(s)	106, 158, 255, 280, 394, 555
BmrFI	CCNGG	3 cut(s)	558, 705, 831
BmsI	GCATC	2 cut(s)	471, 729
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
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	4 cut(s)	462, 606, 929, 1123
BseLI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
BseMI	GCAATG	1 cut(s)	244
BseMII	CTCAG	4 cut(s)	86, 800, 839, 1046
BseNI	ACTGG	2 cut(s)	99, 184
BseXI	GCAGC	1 cut(s)	1035
BshFI	GGCC	2 cut(s)	107, 387
BsiHKAI	GWGCWC	1 cut(s)	861
BsiSI	CCGG	1 cut(s)	558
BslFI	GGGAC	4 cut(s)	223, 267, 552, 653
BslI	CCNNNNNNNGG	5 cut(s)	310, 402, 616, 710, 920
BsmAI	GTCTC	3 cut(s)	10, 1053, 1074
BsmBI	CGTCTC	1 cut(s)	1074
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	4 cut(s)	85, 799, 838, 1047
BspLI	GGNNCC	6 cut(s)	106, 158, 255, 280, 394, 555
BspMAI	CTGCAG	2 cut(s)	1009, 1025
BspMI	ACCTGC	2 cut(s)	259, 1099
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)	229, 566, 698
BstACI	GRCGYC	1 cut(s)	300
BstAPI	GCANNNNNTGC	1 cut(s)	654
BstC8I	GCNNGC	2 cut(s)	460, 655
BstDEI	CTNAG	5 cut(s)	34, 72, 786, 825, 1055
BstDSI	CCRYGG	1 cut(s)	294
BstF5I	GGATG	4 cut(s)	462, 606, 929, 1123
BstKTI	GATC	3 cut(s)	333, 901, 919
BstMAI	GTCTC	3 cut(s)	10, 1053, 1074
BstMBI	GATC	3 cut(s)	330, 898, 916
BstMWI	GCNNNNNNNGC	2 cut(s)	654, 726
BstNI	CCWGG	2 cut(s)	705, 831
BstNSI	RCATGY	1 cut(s)	519
BstSCI	CCNGG	3 cut(s)	556, 703, 829
BstSFI	CTRYAG	2 cut(s)	1005, 1021
BstV1I	GCAGC	1 cut(s)	1035
BsuRI	GGCC	2 cut(s)	107, 387
BtgI	CCRYGG	1 cut(s)	294
BtsCI	GGATG	4 cut(s)	462, 606, 929, 1123
BtsI	GCAGTG	1 cut(s)	526
BtsIMutI	CAGTG	4 cut(s)	177, 526, 573, 694
BveI	ACCTGC	2 cut(s)	259, 1099
Cac8I	GCNNGC	2 cut(s)	460, 655
Cfr13I	GGNCC	5 cut(s)	105, 254, 322, 701, 1088
Csp6I	GTAC	3 cut(s)	92, 272, 783
CviAII	CATG	7 cut(s)	217, 365, 455, 516, 710, 1043, 1104
CviQI	GTAC	3 cut(s)	92, 272, 783
DdeI	CTNAG	5 cut(s)	34, 72, 786, 825, 1055
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	4 cut(s)	254, 322, 701, 1088
Eco57I	CTGAAG	1 cut(s)	322
EcoO109I	RGGNCCY	1 cut(s)	1088
EcoRI	GAATTC	1 cut(s)	1096
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
Esp3I	CGTCTC	1 cut(s)	1074
FaeI	CATG	7 cut(s)	220, 368, 458, 519, 713, 1046, 1107
FalI	AAGNNNNNCTT	2 cut(s)	1021, 1053
FaqI	GGGAC	4 cut(s)	223, 267, 552, 653
FatI	CATG	7 cut(s)	216, 364, 454, 515, 709, 1042, 1103
FauNDI	CATATG	1 cut(s)	1111
FbaI	TGATCA	2 cut(s)	898, 916
Fnu4HI	GCNGC	1 cut(s)	1024
FokI	GGATG	4 cut(s)	449, 593, 936, 1130
Fsp4HI	GCNGC	1 cut(s)	1024
FspBI	CTAG	1 cut(s)	687
GluI	GCNGC	1 cut(s)	1024
GsuI	CTGGAG	1 cut(s)	201
HaeIII	GGCC	2 cut(s)	107, 387
HapII	CCGG	1 cut(s)	558
Hin1I	GRCGYC	1 cut(s)	300
Hin1II	CATG	7 cut(s)	220, 368, 458, 519, 713, 1046, 1107
HindIII	AAGCTT	1 cut(s)	1125
HinfI	GANTC	4 cut(s)	582, 620, 801, 938
HpaII	CCGG	1 cut(s)	558
HphI	GGTGA	1 cut(s)	572
Hpy166II	GTNNAC	7 cut(s)	31, 85, 298, 322, 694, 701, 1034
Hpy188I	TCNGA	4 cut(s)	341, 725, 789, 954
Hpy188III	TCNNGA	4 cut(s)	7, 142, 805, 993
Hpy8I	GTNNAC	7 cut(s)	31, 85, 298, 322, 694, 701, 1034
HpyAV	CCTTC	2 cut(s)	668, 1158
HpyCH4III	ACNGT	3 cut(s)	229, 566, 698
HpyCH4IV	ACGT	3 cut(s)	212, 300, 837
HpyCH4V	TGCA	9 cut(s)	113, 249, 268, 458, 519, 648, 842, 1007, 1023
HpyF10VI	GCNNNNNNNGC	2 cut(s)	654, 726
HpyF3I	CTNAG	5 cut(s)	34, 72, 786, 825, 1055
HpySE526I	ACGT	3 cut(s)	212, 300, 837
Hsp92I	GRCGYC	1 cut(s)	300
Hsp92II	CATG	7 cut(s)	220, 368, 458, 519, 713, 1046, 1107
Ksp22I	TGATCA	2 cut(s)	898, 916
Kzo9I	GATC	3 cut(s)	330, 898, 916
LmnI	GCTCC	3 cut(s)	295, 392, 559
Lsp1109I	GCAGC	1 cut(s)	1035
LweI	GCATC	2 cut(s)	471, 729
MaeI	CTAG	1 cut(s)	687
MaeII	ACGT	3 cut(s)	212, 300, 837
MaeIII	GTNAC	3 cut(s)	49, 560, 745
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
MmeI	TCCRAC	1 cut(s)	360
MnlI	CCTC	6 cut(s)	176, 406, 429, 952, 1079, 1155
MroXI	GAANNNNTTC	1 cut(s)	730
MseI	TTAA	5 cut(s)	57, 957, 966, 972, 1011
MslI	CAYNNNNRTG	2 cut(s)	369, 866
MspI	CCGG	1 cut(s)	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)	1111
NdeII	GATC	3 cut(s)	330, 898, 916
NlaIII	CATG	7 cut(s)	220, 368, 458, 519, 713, 1046, 1107
NlaIV	GGNNCC	6 cut(s)	106, 158, 255, 280, 394, 555
NmuCI	GTSAC	1 cut(s)	560
NspI	RCATGY	1 cut(s)	519
PdmI	GAANNNNTTC	1 cut(s)	730
PfeI	GAWTC	4 cut(s)	582, 620, 801, 938
PflMI	CCANNNNNTGG	1 cut(s)	616
PkrI	GCNGC	1 cut(s)	1025
PpuMI	RGGWCCY	1 cut(s)	1088
Psp1406I	AACGTT	1 cut(s)	837
Psp5II	RGGWCCY	1 cut(s)	1088
Psp6I	CCWGG	2 cut(s)	703, 829
PspGI	CCWGG	2 cut(s)	703, 829
PspN4I	GGNNCC	6 cut(s)	106, 158, 255, 280, 394, 555
PspPI	GGNCC	5 cut(s)	105, 254, 322, 701, 1088
PspPPI	RGGWCCY	1 cut(s)	1088
PstI	CTGCAG	2 cut(s)	1009, 1025
RsaI	GTAC	3 cut(s)	93, 273, 784
RsaNI	GTAC	3 cut(s)	92, 272, 783
RseI	CAYNNNNRTG	2 cut(s)	369, 866
SaqAI	TTAA	5 cut(s)	57, 957, 966, 972, 1011
SatI	GCNGC	1 cut(s)	1024
Sau3AI	GATC	3 cut(s)	330, 898, 916
Sau96I	GGNCC	5 cut(s)	105, 254, 322, 701, 1088
ScrFI	CCNGG	3 cut(s)	558, 705, 831
SduI	GDGCHC	1 cut(s)	861
SfaNI	GCATC	2 cut(s)	471, 729
SfcI	CTRYAG	2 cut(s)	1005, 1021
SinI	GGWCC	4 cut(s)	254, 322, 701, 1088
SmiMI	CAYNNNNRTG	2 cut(s)	369, 866
SmlI	CTYRAG	1 cut(s)	142
SmoI	CTYRAG	1 cut(s)	142
SsiI	CCGC	2 cut(s)	466, 930
SspI	AATATT	1 cut(s)	964
SspMI	CTAG	1 cut(s)	687
StyD4I	CCNGG	3 cut(s)	556, 703, 829
StyI	CCWWGG	2 cut(s)	12, 388
TaaI	ACNGT	3 cut(s)	229, 566, 698
TaiI	ACGT	3 cut(s)	215, 303, 840
TaqI	TCGA	1 cut(s)	8
TatI	WGTACW	1 cut(s)	91
TfiI	GAWTC	4 cut(s)	582, 620, 801, 938
Tru1I	TTAA	5 cut(s)	57, 957, 966, 972, 1011
Tru9I	TTAA	5 cut(s)	57, 957, 966, 972, 1011
TscAI	CASTG	4 cut(s)	184, 526, 580, 701
TseFI	GTSAC	1 cut(s)	560
TseI	GCWGC	1 cut(s)	1023
Tsp45I	GTSAC	1 cut(s)	560
TspDTI	ATGAA	3 cut(s)	205, 353, 1098
TspGWI	ACGGA	4 cut(s)	594, 622, 936, 1098
TspRI	CASTG	4 cut(s)	184, 526, 580, 701
Van91I	CCANNNNNTGG	1 cut(s)	616
VpaK11BI	GGWCC	4 cut(s)	254, 322, 701, 1088
XapI	RAATTY	3 cut(s)	122, 507, 1096
XceI	RCATGY	1 cut(s)	519
XcmI	CCANNNNNNNNNTGG	1 cut(s)	311
XmnI	GAANNNNTTC	1 cut(s)	730
XspI	CTAG	1 cut(s)	687
ZraI	GACGTC	1 cut(s)	301

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