Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0004361

Physical Location & Seq

Genomic Coordinates Reverse (-)

55109892 .. 55115349

Gene Structure 5458 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00260790.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1332 bp

ATGCCTGCTTTCTGGTTCTTCCTGTCGATTTTCCTATGCCTCAGCTATGTCTCTACGGCGGCGGAGCCGGTGACCTGCTCGGGGATAGTGCCAATGAAGTACCGTTACGATAAGATTTCGATAGCGGATTTTGGGGGCGTCGGTGACGGCGTCACGGTGAACACCAAGGCGTTTCGGGCGGCCATATATCGGATTCAGCATTTGCACAGGAGAGGAGGCACGCTTCTTTACATACCTCCTGGGGTGTACTTAACGGAGAGCTTCAATCTCACTAGCCACATGACTCTGTACTTGGCTAGAGGTGCTGTTATCAAAGCCACACAGAACACTAAGAATTGGCCTTTAATTGCTCCTTTGCCGTCTTATGGAAGGGGGAGAGAACGCCCTGGAGGGAGATATGTGAGCTTCATCCATGGCGATGGAGTTCATGATGTGGTTATCACTGGTGAGAATGGGACAATTGATGGCCAAGGAGATGTGTGGTGGAACATGTGGAGGCAAAGAACTCTTCAATTCACCAGACCAAATCTCATTGAGTTCATCAACTCTAAAAACGTTATCATTTCCAATGTGATTTTCCAGAACTCTCCATTTTGGAATATTCACCCTGTTTATTCCAGCAACATTGTTGTCCGGTATGTCACAATATTGGCTCCAGCTGACTCTCCCAACACTGATGGAATTGATCCAGATTCAAGCTCTAATGTCTGCATAGAGGACTCGTACATATCTACTGGAGATGATCTTGTGGCTGTAAAGAGTGGATGGGATGAGTATGGGATTGCTTATGGTCGCCCTAGTTCCGACATTACCATCCGTCGGATCAGAGGATCATCCCCATTTTCTGGAATTGCAATAGGAAGTGAAACCTCTGGTGGAGTGGAGAATGTATTTGCCGAACACATAAACCTTTACAACGTGGGAGTTGGTATCCATATAAAAACAAACAGCGGTAGGGGAGGCTTCATAAGAAACATAACAGTTTCAAATGTTTTCATGGAAAAGGCACGGAAGGGTATAAAGATTGCAGGAGATGTTGGAGACCACCCTGATGACAAATTCAATCCAAATGCCCTCCCAGTGGTAAAGGGCATCACATTAACAGACATCTGGGGTATACAAGTTCTGCAGGCAGGTCTCATACAAGGCCTCAAGAACTCCCCGTTCACCGGAATCTGTCTTTCCAACATCAACCTCCATGGCATGACCGCAACAACAAGAACACCTCCATGGAAGTGCTCAGATGTCAGCGGGGCTGCTCATCTGGTGAACCCCATCCAATGCTCGGAGTTGAATAGTGCCCAACACGCAACTTCATGCTCCAACTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

443

Amino Acids

48.38

Weight (kDa)

8.38

Isoelectric Point (pI)

33.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	39 - 117	2e-06	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	135 - 416	2.1e-41	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

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Orthologous Genes (Group: OG0004361)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G23820 AT5G41870
fragaria_vesca	FvH4_5g04440
malus_domestica	MD06G1105300.v1.1 MD14G1127400.v1.1
prunus_persica	Prupe.5G117600_v2.0.a1 Prupe.5G117600_v2.0.a1
pyrus_communis	pycom06g09960
rosa_chinensis	RchiOBHm_Chr6g0245371 RchiOBHm_Chr7g0195091
rosa_laevigata	RLG00000004148 RLG00000015306
rosa_multiflora	Rmu_sc0004584.1_g000009
rosa_roxburghii	Rroxscaffold_3G00260790
rosa_rugosa	Rorug07G0020300 Rorug07G0020400 Rorug07G0020500
rosa_samantha	Rh6BG025300 Rh6BG025900 Rh6BG026000 Rh6BG026100 Rh6BG026400 Rh6CG023600 Rh6CG024900 Rh6DG023600 Rh6DG024300 Rh7AG147900 Rh7BG148500 Rh7CG152100 Rh7DG149100
rosa_wichuraiana	Rw6G002480 Rw7G012620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	83, 1124
AccB7I	CCANNNNNTGG	1 cut(s)	845
AccI	GTMKAC	1 cut(s)	1117
AciI	CCGC	7 cut(s)	59, 62, 125, 179, 951, 1209, 1251
AclI	AACGTT	1 cut(s)	555
AclWI	GGATC	3 cut(s)	680, 830, 838
AcoI	YGGCCR	2 cut(s)	180, 466
AcsI	RAATTY	1 cut(s)	1058
AcyI	GRCGYC	2 cut(s)	138, 150
AfaI	GTAC	4 cut(s)	101, 248, 290, 725
AfiI	CCNNNNNNNGG	8 cut(s)	81, 189, 365, 819, 845, 1081, 1169, 1285
AflIII	ACRYGT	1 cut(s)	489
AgsI	TTSAA	6 cut(s)	265, 512, 696, 987, 1063, 1294
AjnI	CCWGG	2 cut(s)	238, 385
AjuI	GAANNNNNNNTTGG	2 cut(s)	560, 592
AluBI	AGCT	5 cut(s)	45, 261, 405, 659, 699
AluI	AGCT	5 cut(s)	45, 261, 405, 659, 699
Alw21I	GWGCWC	1 cut(s)	1241
Alw26I	GTCTC	3 cut(s)	55, 1035, 1142
AlwI	GGATC	3 cut(s)	680, 830, 838
Ama87I	CYCGRG	1 cut(s)	79
AoxI	GGCC	4 cut(s)	180, 338, 466, 1147
ApeKI	GCWGC	1 cut(s)	1256
ApoI	RAATTY	1 cut(s)	1058
AsuHPI	GGTGA	8 cut(s)	82, 155, 169, 458, 508, 596, 1159, 1279
AvaI	CYCGRG	1 cut(s)	79
BaeGI	GKGCMC	1 cut(s)	1303
BalI	TGGCCA	1 cut(s)	468
BarI	GAAGNNNNNNTAC	2 cut(s)	89, 121
Bbv12I	GWGCWC	1 cut(s)	1241
BbvCI	CCTCAGC	1 cut(s)	41
BbvI	GCAGC	1 cut(s)	1243
BccI	CCATC	6 cut(s)	413, 458, 671, 759, 821, 1283
BceAI	ACGGC	3 cut(s)	72, 163, 343
BciT130I	CCWGG	2 cut(s)	240, 387
BciVI	GTATCC	1 cut(s)	941
BcoDI	GTCTC	3 cut(s)	55, 1035, 1142
BfaI	CTAG	3 cut(s)	273, 297, 798
BfmI	CTRYAG	1 cut(s)	1127
BfuAI	ACCTGC	2 cut(s)	83, 1124
BfuI	GTATCC	1 cut(s)	941
BisI	GCNGC	3 cut(s)	60, 180, 1257
BlsI	GCNGC	3 cut(s)	61, 181, 1258
Bme1390I	CCNGG	2 cut(s)	240, 387
BmeT110I	CYCGRG	1 cut(s)	79
BmiI	GGNNCC	2 cut(s)	66, 654
BmrFI	CCNGG	2 cut(s)	240, 387
BmrI	ACTGGG	1 cut(s)	1073
BmsI	GCATC	1 cut(s)	1101
BmuI	ACTGGG	1 cut(s)	1073
BpmI	CTGGAG	3 cut(s)	408, 639, 756
Bpu10I	CCTNAGC	1 cut(s)	41
BpuEI	CTTGAG	1 cut(s)	1136
BsaHI	GRCGYC	2 cut(s)	138, 150
BsaI	GGTCTC	2 cut(s)	1035, 1142
BsaJI	CCNNGG	7 cut(s)	165, 239, 385, 412, 469, 1198, 1229
BsaWI	WCCGGW	2 cut(s)	633, 1169
Bsc4I	CCNNNNNNNGG	8 cut(s)	81, 189, 365, 819, 845, 1081, 1169, 1285
Bse118I	RCCGGY	1 cut(s)	67
Bse1I	ACTGG	3 cut(s)	448, 739, 1079
BseBI	CCWGG	2 cut(s)	240, 387
BseDI	CCNNGG	7 cut(s)	165, 239, 385, 412, 469, 1198, 1229
BseGI	GGATG	6 cut(s)	408, 770, 775, 813, 833, 1275
BseLI	CCNNNNNNNGG	8 cut(s)	81, 189, 365, 819, 845, 1081, 1169, 1285
BseMII	CTCAG	2 cut(s)	55, 1254
BseNI	ACTGG	3 cut(s)	448, 739, 1079
BseRI	GAGGAG	1 cut(s)	228
BseSI	GKGCMC	1 cut(s)	1303
BseXI	GCAGC	1 cut(s)	1243
BshFI	GGCC	4 cut(s)	182, 340, 468, 1149
BsiHKAI	GWGCWC	1 cut(s)	1241
BsiHKCI	CYCGRG	1 cut(s)	79
BsiSI	CCGG	3 cut(s)	68, 634, 1170
BslFI	GGGAC	1 cut(s)	469
BslI	CCNNNNNNNGG	8 cut(s)	81, 189, 365, 819, 845, 1081, 1169, 1285
BsmAI	GTCTC	3 cut(s)	55, 1035, 1142
BsmFI	GGGAC	1 cut(s)	469
BsnI	GGCC	4 cut(s)	182, 340, 468, 1149
Bso31I	GGTCTC	2 cut(s)	1035, 1142
BsoBI	CYCGRG	1 cut(s)	79
Bsp1286I	GDGCHC	2 cut(s)	1241, 1303
Bsp143I	GATC	4 cut(s)	685, 742, 822, 830
Bsp19I	CCATGG	3 cut(s)	412, 1198, 1229
BspACI	CCGC	7 cut(s)	59, 62, 125, 179, 951, 1209, 1251
BspANI	GGCC	4 cut(s)	182, 340, 468, 1149
BspCNI	CTCAG	2 cut(s)	54, 1253
BspHI	TCATGA	1 cut(s)	427
BspLI	GGNNCC	2 cut(s)	66, 654
BspMAI	CTGCAG	1 cut(s)	1131
BspMI	ACCTGC	2 cut(s)	83, 1124
BspPI	GGATC	3 cut(s)	680, 830, 838
BspTNI	GGTCTC	2 cut(s)	1035, 1142
BsrFI	RCCGGY	1 cut(s)	67
BsrI	ACTGG	3 cut(s)	448, 739, 1079
BssAI	RCCGGY	1 cut(s)	67
BssECI	CCNNGG	7 cut(s)	165, 239, 385, 412, 469, 1198, 1229
BssMI	GATC	4 cut(s)	685, 742, 822, 830
BssNAI	GTATAC	1 cut(s)	1118
BssNI	GRCGYC	2 cut(s)	138, 150
BssT1I	CCWWGG	5 cut(s)	165, 412, 469, 1198, 1229
Bst1107I	GTATAC	1 cut(s)	1118
Bst2UI	CCWGG	2 cut(s)	240, 387
Bst4CI	ACNGT	3 cut(s)	104, 157, 982
Bst6I	CTCTTC	1 cut(s)	513
BstACI	GRCGYC	2 cut(s)	138, 150
BstC8I	GCNNGC	3 cut(s)	6, 221, 1131
BstDEI	CTNAG	3 cut(s)	41, 330, 1240
BstDSI	CCRYGG	3 cut(s)	412, 1198, 1229
BstEII	GGTNACC	1 cut(s)	70
BstF5I	GGATG	6 cut(s)	408, 770, 775, 813, 833, 1275
BstKTI	GATC	4 cut(s)	688, 745, 825, 833
BstMAI	GTCTC	3 cut(s)	55, 1035, 1142
BstMBI	GATC	4 cut(s)	685, 742, 822, 830
BstMWI	GCNNNNNNNGC	3 cut(s)	176, 302, 1307
BstNI	CCWGG	2 cut(s)	240, 387
BstNSI	RCATGY	1 cut(s)	493
BstPI	GGTNACC	1 cut(s)	70
BstSCI	CCNGG	2 cut(s)	238, 385
BstSFI	CTRYAG	1 cut(s)	1127
BstSLI	GKGCMC	1 cut(s)	1303
BstV1I	GCAGC	1 cut(s)	1243
BstXI	CCANNNNNNTGG	1 cut(s)	419
BstZ17I	GTATAC	1 cut(s)	1118
BsuI	GTATCC	1 cut(s)	941
BsuRI	GGCC	4 cut(s)	182, 340, 468, 1149
BtgI	CCRYGG	3 cut(s)	412, 1198, 1229
BtgZI	GCGATG	1 cut(s)	432
BtsCI	GGATG	6 cut(s)	408, 770, 775, 813, 833, 1275
BtsIMutI	CAGTG	3 cut(s)	441, 672, 1086
BveI	ACCTGC	2 cut(s)	83, 1124
Cac8I	GCNNGC	3 cut(s)	6, 221, 1131
CciI	TCATGA	1 cut(s)	427
Cfr10I	RCCGGY	1 cut(s)	67
CseI	GACGC	2 cut(s)	127, 139
Csp6I	GTAC	4 cut(s)	100, 247, 289, 724
CviAII	CATG	9 cut(s)	280, 413, 428, 490, 997, 1199, 1204, 1230, 1317
CviQI	GTAC	4 cut(s)	100, 247, 289, 724
DdeI	CTNAG	3 cut(s)	41, 330, 1240
DpnI	GATC	4 cut(s)	687, 744, 824, 832
DpnII	GATC	4 cut(s)	685, 742, 822, 830
EaeI	YGGCCR	2 cut(s)	180, 466
Eam1104I	CTCTTC	1 cut(s)	513
EarI	CTCTTC	1 cut(s)	513
EciI	GGCGGA	1 cut(s)	77
Eco130I	CCWWGG	5 cut(s)	165, 412, 469, 1198, 1229
Eco147I	AGGCCT	1 cut(s)	1149
Eco31I	GGTCTC	2 cut(s)	1035, 1142
Eco88I	CYCGRG	1 cut(s)	79
Eco91I	GGTNACC	1 cut(s)	70
EcoO65I	GGTNACC	1 cut(s)	70
EcoRII	CCWGG	2 cut(s)	238, 385
EcoT14I	CCWWGG	5 cut(s)	165, 412, 469, 1198, 1229
ErhI	CCWWGG	5 cut(s)	165, 412, 469, 1198, 1229
FaeI	CATG	9 cut(s)	283, 416, 431, 493, 1000, 1202, 1207, 1233, 1320
FaqI	GGGAC	1 cut(s)	469
FatI	CATG	9 cut(s)	279, 412, 427, 489, 996, 1198, 1203, 1229, 1316
FauI	CCCGC	1 cut(s)	1244
FblI	GTMKAC	1 cut(s)	1117
Fnu4HI	GCNGC	3 cut(s)	60, 180, 1257
FokI	GGATG	6 cut(s)	395, 777, 782, 800, 820, 1262
Fsp4HI	GCNGC	3 cut(s)	60, 180, 1257
FspBI	CTAG	3 cut(s)	273, 297, 798
GluI	GCNGC	3 cut(s)	60, 180, 1257
GsuI	CTGGAG	3 cut(s)	408, 639, 756
HaeIII	GGCC	4 cut(s)	182, 340, 468, 1149
HapII	CCGG	3 cut(s)	68, 634, 1170
HgaI	GACGC	2 cut(s)	127, 139
Hin1I	GRCGYC	2 cut(s)	138, 150
Hin1II	CATG	9 cut(s)	283, 416, 431, 493, 1000, 1202, 1207, 1233, 1320
HinfI	GANTC	6 cut(s)	193, 283, 662, 692, 719, 1173
HpaII	CCGG	3 cut(s)	68, 634, 1170
HphI	GGTGA	8 cut(s)	82, 155, 169, 458, 508, 596, 1159, 1279
Hpy166II	GTNNAC	5 cut(s)	160, 247, 1118, 1167, 1270
Hpy188I	TCNGA	6 cut(s)	192, 805, 822, 827, 1243, 1288
Hpy188III	TCNNGA	5 cut(s)	428, 580, 689, 846, 1153
Hpy8I	GTNNAC	5 cut(s)	160, 247, 1118, 1167, 1270
Hpy99I	CGWCG	2 cut(s)	143, 822
HpyAV	CCTTC	2 cut(s)	363, 1006
HpyCH4III	ACNGT	3 cut(s)	104, 157, 982
HpyCH4IV	ACGT	2 cut(s)	555, 918
HpyCH4V	TGCA	5 cut(s)	205, 711, 854, 1028, 1129
HpyF10VI	GCNNNNNNNGC	3 cut(s)	176, 302, 1307
HpyF3I	CTNAG	3 cut(s)	41, 330, 1240
HpySE526I	ACGT	2 cut(s)	555, 918
Hsp92I	GRCGYC	2 cut(s)	138, 150
Hsp92II	CATG	9 cut(s)	283, 416, 431, 493, 1000, 1202, 1207, 1233, 1320
Kzo9I	GATC	4 cut(s)	685, 742, 822, 830
LmnI	GCTCC	4 cut(s)	64, 355, 658, 1325
Lsp1109I	GCAGC	1 cut(s)	1243
LweI	GCATC	1 cut(s)	1101
MaeI	CTAG	3 cut(s)	273, 297, 798
MaeII	ACGT	2 cut(s)	555, 918
MaeIII	GTNAC	5 cut(s)	70, 104, 143, 151, 640
MalI	GATC	4 cut(s)	687, 744, 824, 832
MboI	GATC	4 cut(s)	685, 742, 822, 830
MboII	GAAGA	2 cut(s)	10, 500
MfeI	CAATTG	1 cut(s)	459
MhlI	GDGCHC	2 cut(s)	1241, 1303
MlsI	TGGCCA	1 cut(s)	468
MluCI	AATT	7 cut(s)	334, 345, 459, 512, 681, 849, 1058
MluNI	TGGCCA	1 cut(s)	468
MlyI	GAGTC	3 cut(s)	277, 656, 713
MmeI	TCCRAC	4 cut(s)	800, 828, 1018, 1209
Mox20I	TGGCCA	1 cut(s)	468
MscI	TGGCCA	1 cut(s)	468
MseI	TTAA	3 cut(s)	251, 344, 1100
MslI	CAYNNNNRTG	4 cut(s)	417, 1050, 1228, 1234
Msp20I	TGGCCA	1 cut(s)	468
MspA1I	CMGCKG	3 cut(s)	659, 951, 1251
MspI	CCGG	3 cut(s)	68, 634, 1170
MspR9I	CCNGG	2 cut(s)	240, 387
MunI	CAATTG	1 cut(s)	459
MvaI	CCWGG	2 cut(s)	240, 387
MwoI	GCNNNNNNNGC	3 cut(s)	176, 302, 1307
NcoI	CCATGG	3 cut(s)	412, 1198, 1229
NdeII	GATC	4 cut(s)	685, 742, 822, 830
NlaIII	CATG	9 cut(s)	283, 416, 431, 493, 1000, 1202, 1207, 1233, 1320
NlaIV	GGNNCC	2 cut(s)	66, 654
NmuCI	GTSAC	4 cut(s)	70, 143, 151, 640
NspI	RCATGY	1 cut(s)	493
PagI	TCATGA	1 cut(s)	427
PceI	AGGCCT	1 cut(s)	1149
PciI	ACATGT	1 cut(s)	489
PcsI	WCGNNNNNNNCGW	1 cut(s)	147
PfeI	GAWTC	3 cut(s)	193, 692, 1173
PflFI	GACNNNGTC	1 cut(s)	149
PflMI	CCANNNNNTGG	1 cut(s)	845
PkrI	GCNGC	3 cut(s)	61, 181, 1258
PleI	GAGTC	3 cut(s)	277, 656, 713
PpsI	GAGTC	3 cut(s)	277, 656, 713
PscI	ACATGT	1 cut(s)	489
Psp1406I	AACGTT	1 cut(s)	555
Psp6I	CCWGG	2 cut(s)	238, 385
PspEI	GGTNACC	1 cut(s)	70
PspGI	CCWGG	2 cut(s)	238, 385
PspN4I	GGNNCC	2 cut(s)	66, 654
PstI	CTGCAG	1 cut(s)	1131
PsyI	GACNNNGTC	1 cut(s)	149
PvuII	CAGCTG	1 cut(s)	659
RsaI	GTAC	4 cut(s)	101, 248, 290, 725
RsaNI	GTAC	4 cut(s)	100, 247, 289, 724
RseI	CAYNNNNRTG	4 cut(s)	417, 1050, 1228, 1234
SaqAI	TTAA	3 cut(s)	251, 344, 1100
SatI	GCNGC	3 cut(s)	60, 180, 1257
Sau3AI	GATC	4 cut(s)	685, 742, 822, 830
SchI	GAGTC	3 cut(s)	277, 656, 713
ScrFI	CCNGG	2 cut(s)	240, 387
SduI	GDGCHC	2 cut(s)	1241, 1303
SfaNI	GCATC	1 cut(s)	1101
SfcI	CTRYAG	1 cut(s)	1127
SmiMI	CAYNNNNRTG	4 cut(s)	417, 1050, 1228, 1234
SmlI	CTYRAG	1 cut(s)	1151
SmoI	CTYRAG	1 cut(s)	1151
Sse9I	AATT	7 cut(s)	334, 345, 459, 512, 681, 849, 1058
SseBI	AGGCCT	1 cut(s)	1149
SsiI	CCGC	7 cut(s)	59, 62, 125, 179, 951, 1209, 1251
SspI	AATATT	2 cut(s)	601, 648
SspMI	CTAG	3 cut(s)	273, 297, 798
StuI	AGGCCT	1 cut(s)	1149
StyD4I	CCNGG	2 cut(s)	238, 385
StyI	CCWWGG	5 cut(s)	165, 412, 469, 1198, 1229
TaaI	ACNGT	3 cut(s)	104, 157, 982
TaiI	ACGT	2 cut(s)	558, 921
TaqI	TCGA	2 cut(s)	26, 119
TasI	AATT	7 cut(s)	334, 345, 459, 512, 681, 849, 1058
TatI	WGTACW	2 cut(s)	246, 288
TauI	GCSGC	2 cut(s)	62, 182
TfiI	GAWTC	3 cut(s)	193, 692, 1173
Tru1I	TTAA	3 cut(s)	251, 344, 1100
Tru9I	TTAA	3 cut(s)	251, 344, 1100
TscAI	CASTG	3 cut(s)	448, 679, 1086
TseFI	GTSAC	4 cut(s)	70, 143, 151, 640
TseI	GCWGC	1 cut(s)	1256
Tsp45I	GTSAC	4 cut(s)	70, 143, 151, 640
TspDTI	ATGAA	7 cut(s)	110, 397, 416, 529, 955, 985, 1305
TspGWI	ACGGA	3 cut(s)	269, 806, 1024
TspRI	CASTG	3 cut(s)	448, 679, 1086
Tth111I	GACNNNGTC	1 cut(s)	149
Van91I	CCANNNNNTGG	1 cut(s)	845
XapI	RAATTY	1 cut(s)	1058
XceI	RCATGY	1 cut(s)	493
XmiI	GTMKAC	1 cut(s)	1117
XspI	CTAG	3 cut(s)	273, 297, 798

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