Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr7

Orthogroup ID

OG0004361

Physical Location & Seq

Genomic Coordinates Forward (+)

11977203 .. 11980798

Gene Structure 3596 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw7G012620.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1335 bp

ATGCCTGCTTTCTGGTTCTTCCTTTCGATTTTCCTCCTATGCCTCAGCCACGTCTCTACGGCGGCGGAGCCCGTGACCTGCTCAGGGATAGTGCCAATGAAGTACCGTTACGATAAGATTTCGATAGCGGATTTCGGGGGCGTCGGTGACGGCGTCACGGTGAACACCAAGGCGTTTCGGGCGGCCATATATCGGATTCAGCATTTGCACAGGAGAGGAGGCACGCTTCTTTACATACCTCCTGGGGTGTACTTAACGGAGAGCTTCAATCTCACTAGCCACATGACTCTCTACTTGGCTAGAGGTGCTGTTATCAAAGCCACACAGAACACTAAGAATTGGCCTTTAATTGCTCCTTTGCCGTCTTATGGAAGAGGGAGAGAACGCCCTGGAGGGAGATATGTGAGCTTCATCCATGGCGATGGAGTTCATGATGTGGTTATCACTGGTGAGAATGGGACAATTGATGGCCAAGGAGATGTGTGGTGGAACATGTGGAGGCAAAGAACTCTTCAATTCACCAGACCAAATCTCATTGAGTTCATCAACTCTAAAAACATTATCATTTCCAATGTGATTTTCCAGAACTCTCCATTTTGGAATATTCACCCTGTTTATTCCAGCAACATTGTTGTCCGGTATGTCACAATATTGGCTCCAGCTGACTCTCCCAACACCGATGGAATTGATCCAGATTCAAGCTCTAATGTCTGCATAGAGGACTCGTACATATCTACTGGAGATGATCTTGTGGCTGTAAAGAGTGGATGGGATGAGTATGGGATTGCTTATGGTCGCCCTAGTTCCGACATTACCATCCGTCGGATCAGAGGATCATCCCCATTTTCTGGAATTGCAATAGGAAGTGAAACCTCTGGTGGGGTGGAGAATGTATTTGCCGAACACATAAACCTTTACAACGTGGGAGTTGGTATCCATATAAAAACAAACATCGGTAGGGGAGGCTTCATAAGAAACATTACAGTTTCAAATGTGTTCATGGAAAAGGCACGGAAGGGTATAAAGATTGCAGGAGATGTTGGAGACCACCCTGATGACAAATTCAATCCAAATGCACTCCCAGTGGTAAAGGGCATCACATTAACAGACATCTGGGGTATACAAGTTCTGCAGGCAGGTCTCATACAAGGCATCAAGAACTCCCCTTTCACCGGAATCTGTCTTTCCAACATCAACCTCCATGGCATGACCGCAACAACAAGAACACCTCCATGGAAGTGCTCAGATGTCAGCGGGGCTGCTCATCTGGTGAGCCCCATCCAATGCTCGGAGTTGACCGGTGCCCAACACGCAACTTCATGCTCCAACTACTAA

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

444

Amino Acids

48.43

Weight (kDa)

8.39

Isoelectric Point (pI)

35.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	40 - 120	1.9e-06	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	136 - 417	1.1e-40	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

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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)	86, 1127
AccB1I	GGYRCC	1 cut(s)	1301
AccB7I	CCANNNNNTGG	1 cut(s)	848
AccI	GTMKAC	1 cut(s)	1120
AciI	CCGC	6 cut(s)	62, 65, 128, 182, 1212, 1254
AclWI	GGATC	3 cut(s)	683, 833, 841
AcoI	YGGCCR	2 cut(s)	183, 469
AcsI	RAATTY	1 cut(s)	1061
AcyI	GRCGYC	2 cut(s)	141, 153
AfaI	GTAC	3 cut(s)	104, 251, 728
AfiI	CCNNNNNNNGG	8 cut(s)	84, 192, 368, 822, 848, 879, 1172, 1288
AflIII	ACRYGT	1 cut(s)	492
AgeI	ACCGGT	1 cut(s)	1298
AgsI	TTSAA	5 cut(s)	268, 515, 699, 990, 1066
AjiI	CACGTC	1 cut(s)	52
AjnI	CCWGG	2 cut(s)	241, 388
AjuI	GAANNNNNNNTTGG	2 cut(s)	563, 595
AluBI	AGCT	4 cut(s)	264, 408, 662, 702
AluI	AGCT	4 cut(s)	264, 408, 662, 702
Alw21I	GWGCWC	1 cut(s)	1244
Alw26I	GTCTC	3 cut(s)	58, 1038, 1145
AlwI	GGATC	3 cut(s)	683, 833, 841
AoxI	GGCC	3 cut(s)	183, 341, 469
ApeKI	GCWGC	1 cut(s)	1259
ApoI	RAATTY	1 cut(s)	1061
AsiGI	ACCGGT	1 cut(s)	1298
AsuHPI	GGTGA	7 cut(s)	158, 172, 461, 511, 599, 1162, 1282
BaeGI	GKGCMC	1 cut(s)	1306
BalI	TGGCCA	1 cut(s)	471
BanI	GGYRCC	1 cut(s)	1301
BanII	GRGCYC	2 cut(s)	72, 1277
BarI	GAAGNNNNNNTAC	2 cut(s)	92, 124
Bbv12I	GWGCWC	1 cut(s)	1244
BbvCI	CCTCAGC	1 cut(s)	44
BbvI	GCAGC	1 cut(s)	1246
BccI	CCATC	6 cut(s)	416, 461, 674, 762, 824, 1286
BceAI	ACGGC	3 cut(s)	75, 166, 346
BciT130I	CCWGG	2 cut(s)	243, 390
BciVI	GTATCC	1 cut(s)	944
BcoDI	GTCTC	3 cut(s)	58, 1038, 1145
BfaI	CTAG	3 cut(s)	276, 300, 801
BfmI	CTRYAG	1 cut(s)	1130
BfuAI	ACCTGC	2 cut(s)	86, 1127
BfuI	GTATCC	1 cut(s)	944
BisI	GCNGC	3 cut(s)	63, 183, 1260
BlsI	GCNGC	3 cut(s)	64, 184, 1261
Bme1390I	CCNGG	2 cut(s)	243, 390
BmgBI	CACGTC	1 cut(s)	52
BmiI	GGNNCC	3 cut(s)	69, 657, 1303
BmrFI	CCNGG	2 cut(s)	243, 390
BmrI	ACTGGG	1 cut(s)	1076
BmsI	GCATC	2 cut(s)	1104, 1161
BmuI	ACTGGG	1 cut(s)	1076
BpmI	CTGGAG	3 cut(s)	411, 642, 759
Bpu10I	CCTNAGC	2 cut(s)	44, 82
BsaHI	GRCGYC	2 cut(s)	141, 153
BsaI	GGTCTC	2 cut(s)	1038, 1145
BsaJI	CCNNGG	7 cut(s)	168, 242, 388, 415, 472, 1201, 1232
BsaWI	WCCGGW	3 cut(s)	636, 1172, 1298
Bsc4I	CCNNNNNNNGG	8 cut(s)	84, 192, 368, 822, 848, 879, 1172, 1288
Bse118I	RCCGGY	1 cut(s)	1298
Bse1I	ACTGG	3 cut(s)	451, 742, 1082
BseBI	CCWGG	2 cut(s)	243, 390
BseDI	CCNNGG	7 cut(s)	168, 242, 388, 415, 472, 1201, 1232
BseGI	GGATG	6 cut(s)	411, 773, 778, 816, 836, 1278
BseLI	CCNNNNNNNGG	8 cut(s)	84, 192, 368, 822, 848, 879, 1172, 1288
BseMII	CTCAG	3 cut(s)	58, 96, 1257
BseNI	ACTGG	3 cut(s)	451, 742, 1082
BseRI	GAGGAG	1 cut(s)	231
BseSI	GKGCMC	1 cut(s)	1306
BseXI	GCAGC	1 cut(s)	1246
BshFI	GGCC	3 cut(s)	185, 343, 471
BshNI	GGYRCC	1 cut(s)	1301
BshTI	ACCGGT	1 cut(s)	1298
BsiHKAI	GWGCWC	1 cut(s)	1244
BsiSI	CCGG	3 cut(s)	637, 1173, 1299
BslFI	GGGAC	1 cut(s)	472
BslI	CCNNNNNNNGG	8 cut(s)	84, 192, 368, 822, 848, 879, 1172, 1288
BsmAI	GTCTC	3 cut(s)	58, 1038, 1145
BsmBI	CGTCTC	1 cut(s)	58
BsmFI	GGGAC	1 cut(s)	472
BsnI	GGCC	3 cut(s)	185, 343, 471
Bso31I	GGTCTC	2 cut(s)	1038, 1145
Bsp1286I	GDGCHC	4 cut(s)	72, 1244, 1277, 1306
Bsp143I	GATC	4 cut(s)	688, 745, 825, 833
Bsp19I	CCATGG	3 cut(s)	415, 1201, 1232
BspACI	CCGC	6 cut(s)	62, 65, 128, 182, 1212, 1254
BspANI	GGCC	3 cut(s)	185, 343, 471
BspCNI	CTCAG	3 cut(s)	57, 95, 1256
BspHI	TCATGA	1 cut(s)	430
BspLI	GGNNCC	3 cut(s)	69, 657, 1303
BspMAI	CTGCAG	1 cut(s)	1134
BspMI	ACCTGC	2 cut(s)	86, 1127
BspPI	GGATC	3 cut(s)	683, 833, 841
BspT107I	GGYRCC	1 cut(s)	1301
BspTNI	GGTCTC	2 cut(s)	1038, 1145
BsrFI	RCCGGY	1 cut(s)	1298
BsrI	ACTGG	3 cut(s)	451, 742, 1082
BssAI	RCCGGY	1 cut(s)	1298
BssECI	CCNNGG	7 cut(s)	168, 242, 388, 415, 472, 1201, 1232
BssMI	GATC	4 cut(s)	688, 745, 825, 833
BssNAI	GTATAC	1 cut(s)	1121
BssNI	GRCGYC	2 cut(s)	141, 153
BssT1I	CCWWGG	5 cut(s)	168, 415, 472, 1201, 1232
Bst1107I	GTATAC	1 cut(s)	1121
Bst2UI	CCWGG	2 cut(s)	243, 390
Bst4CI	ACNGT	3 cut(s)	107, 160, 985
Bst6I	CTCTTC	2 cut(s)	367, 516
BstACI	GRCGYC	2 cut(s)	141, 153
BstC8I	GCNNGC	3 cut(s)	6, 224, 1134
BstDEI	CTNAG	4 cut(s)	44, 82, 333, 1243
BstDSI	CCRYGG	3 cut(s)	415, 1201, 1232
BstF5I	GGATG	6 cut(s)	411, 773, 778, 816, 836, 1278
BstKTI	GATC	4 cut(s)	691, 748, 828, 836
BstMAI	GTCTC	3 cut(s)	58, 1038, 1145
BstMBI	GATC	4 cut(s)	688, 745, 825, 833
BstMWI	GCNNNNNNNGC	3 cut(s)	179, 305, 1310
BstNI	CCWGG	2 cut(s)	243, 390
BstNSI	RCATGY	1 cut(s)	496
BstSCI	CCNGG	2 cut(s)	241, 388
BstSFI	CTRYAG	1 cut(s)	1130
BstSLI	GKGCMC	1 cut(s)	1306
BstV1I	GCAGC	1 cut(s)	1246
BstXI	CCANNNNNNTGG	1 cut(s)	422
BstZ17I	GTATAC	1 cut(s)	1121
BsuI	GTATCC	1 cut(s)	944
BsuRI	GGCC	3 cut(s)	185, 343, 471
BtgI	CCRYGG	3 cut(s)	415, 1201, 1232
BtgZI	GCGATG	1 cut(s)	435
BtrI	CACGTC	1 cut(s)	52
BtsCI	GGATG	6 cut(s)	411, 773, 778, 816, 836, 1278
BtsIMutI	CAGTG	2 cut(s)	444, 1089
BveI	ACCTGC	2 cut(s)	86, 1127
Cac8I	GCNNGC	3 cut(s)	6, 224, 1134
CciI	TCATGA	1 cut(s)	430
Cfr10I	RCCGGY	1 cut(s)	1298
CseI	GACGC	2 cut(s)	130, 142
Csp6I	GTAC	3 cut(s)	103, 250, 727
CspAI	ACCGGT	1 cut(s)	1298
CviAII	CATG	9 cut(s)	283, 416, 431, 493, 1000, 1202, 1207, 1233, 1320
CviQI	GTAC	3 cut(s)	103, 250, 727
DdeI	CTNAG	4 cut(s)	44, 82, 333, 1243
DpnI	GATC	4 cut(s)	690, 747, 827, 835
DpnII	GATC	4 cut(s)	688, 745, 825, 833
EaeI	YGGCCR	2 cut(s)	183, 469
Eam1104I	CTCTTC	2 cut(s)	367, 516
EarI	CTCTTC	2 cut(s)	367, 516
EciI	GGCGGA	1 cut(s)	80
Eco130I	CCWWGG	5 cut(s)	168, 415, 472, 1201, 1232
Eco24I	GRGCYC	2 cut(s)	72, 1277
Eco31I	GGTCTC	2 cut(s)	1038, 1145
EcoRII	CCWGG	2 cut(s)	241, 388
EcoT14I	CCWWGG	5 cut(s)	168, 415, 472, 1201, 1232
EcoT38I	GRGCYC	2 cut(s)	72, 1277
ErhI	CCWWGG	5 cut(s)	168, 415, 472, 1201, 1232
Esp3I	CGTCTC	1 cut(s)	58
FaeI	CATG	9 cut(s)	286, 419, 434, 496, 1003, 1205, 1210, 1236, 1323
FaqI	GGGAC	1 cut(s)	472
FatI	CATG	9 cut(s)	282, 415, 430, 492, 999, 1201, 1206, 1232, 1319
FauI	CCCGC	1 cut(s)	1247
FblI	GTMKAC	1 cut(s)	1120
Fnu4HI	GCNGC	3 cut(s)	63, 183, 1260
FokI	GGATG	6 cut(s)	398, 780, 785, 803, 823, 1265
FriOI	GRGCYC	2 cut(s)	72, 1277
Fsp4HI	GCNGC	3 cut(s)	63, 183, 1260
FspBI	CTAG	3 cut(s)	276, 300, 801
GluI	GCNGC	3 cut(s)	63, 183, 1260
GsuI	CTGGAG	3 cut(s)	411, 642, 759
HaeIII	GGCC	3 cut(s)	185, 343, 471
HapII	CCGG	3 cut(s)	637, 1173, 1299
HgaI	GACGC	2 cut(s)	130, 142
Hin1I	GRCGYC	2 cut(s)	141, 153
Hin1II	CATG	9 cut(s)	286, 419, 434, 496, 1003, 1205, 1210, 1236, 1323
HincII	GTYRAC	1 cut(s)	1296
HindII	GTYRAC	1 cut(s)	1296
HinfI	GANTC	6 cut(s)	196, 286, 665, 695, 722, 1176
HpaII	CCGG	3 cut(s)	637, 1173, 1299
HphI	GGTGA	7 cut(s)	158, 172, 461, 511, 599, 1162, 1282
Hpy166II	GTNNAC	4 cut(s)	163, 250, 1121, 1296
Hpy188I	TCNGA	6 cut(s)	195, 808, 825, 830, 1246, 1291
Hpy188III	TCNNGA	5 cut(s)	431, 583, 692, 849, 1156
Hpy8I	GTNNAC	4 cut(s)	163, 250, 1121, 1296
Hpy99I	CGWCG	2 cut(s)	146, 825
HpyAV	CCTTC	1 cut(s)	1009
HpyCH4III	ACNGT	3 cut(s)	107, 160, 985
HpyCH4IV	ACGT	2 cut(s)	51, 921
HpyCH4V	TGCA	6 cut(s)	208, 714, 857, 1031, 1076, 1132
HpyF10VI	GCNNNNNNNGC	3 cut(s)	179, 305, 1310
HpyF3I	CTNAG	4 cut(s)	44, 82, 333, 1243
HpySE526I	ACGT	2 cut(s)	51, 921
Hsp92I	GRCGYC	2 cut(s)	141, 153
Hsp92II	CATG	9 cut(s)	286, 419, 434, 496, 1003, 1205, 1210, 1236, 1323
Kzo9I	GATC	4 cut(s)	688, 745, 825, 833
LmnI	GCTCC	4 cut(s)	67, 358, 661, 1328
Lsp1109I	GCAGC	1 cut(s)	1246
LweI	GCATC	2 cut(s)	1104, 1161
MaeI	CTAG	3 cut(s)	276, 300, 801
MaeII	ACGT	2 cut(s)	51, 921
MaeIII	GTNAC	5 cut(s)	73, 107, 146, 154, 643
MalI	GATC	4 cut(s)	690, 747, 827, 835
MboI	GATC	4 cut(s)	688, 745, 825, 833
MboII	GAAGA	3 cut(s)	10, 384, 503
MfeI	CAATTG	1 cut(s)	462
MhlI	GDGCHC	4 cut(s)	72, 1244, 1277, 1306
MlsI	TGGCCA	1 cut(s)	471
MluCI	AATT	7 cut(s)	337, 348, 462, 515, 684, 852, 1061
MluNI	TGGCCA	1 cut(s)	471
MlyI	GAGTC	3 cut(s)	280, 659, 716
MmeI	TCCRAC	4 cut(s)	803, 831, 1021, 1212
Mox20I	TGGCCA	1 cut(s)	471
MscI	TGGCCA	1 cut(s)	471
MseI	TTAA	3 cut(s)	254, 347, 1103
MslI	CAYNNNNRTG	4 cut(s)	420, 1053, 1231, 1237
Msp20I	TGGCCA	1 cut(s)	471
MspA1I	CMGCKG	2 cut(s)	662, 1254
MspI	CCGG	3 cut(s)	637, 1173, 1299
MspR9I	CCNGG	2 cut(s)	243, 390
MunI	CAATTG	1 cut(s)	462
MvaI	CCWGG	2 cut(s)	243, 390
MwoI	GCNNNNNNNGC	3 cut(s)	179, 305, 1310
NcoI	CCATGG	3 cut(s)	415, 1201, 1232
NdeII	GATC	4 cut(s)	688, 745, 825, 833
NlaIII	CATG	9 cut(s)	286, 419, 434, 496, 1003, 1205, 1210, 1236, 1323
NlaIV	GGNNCC	3 cut(s)	69, 657, 1303
NmuCI	GTSAC	4 cut(s)	73, 146, 154, 643
NspI	RCATGY	1 cut(s)	496
PagI	TCATGA	1 cut(s)	430
PciI	ACATGT	1 cut(s)	492
PcsI	WCGNNNNNNNCGW	1 cut(s)	150
PfeI	GAWTC	3 cut(s)	196, 695, 1176
PflFI	GACNNNGTC	1 cut(s)	152
PflMI	CCANNNNNTGG	1 cut(s)	848
PinAI	ACCGGT	1 cut(s)	1298
PkrI	GCNGC	3 cut(s)	64, 184, 1261
PleI	GAGTC	3 cut(s)	280, 659, 716
PpsI	GAGTC	3 cut(s)	280, 659, 716
PscI	ACATGT	1 cut(s)	492
Psp6I	CCWGG	2 cut(s)	241, 388
PspGI	CCWGG	2 cut(s)	241, 388
PspN4I	GGNNCC	3 cut(s)	69, 657, 1303
PstI	CTGCAG	1 cut(s)	1134
PsyI	GACNNNGTC	1 cut(s)	152
PvuII	CAGCTG	1 cut(s)	662
RsaI	GTAC	3 cut(s)	104, 251, 728
RsaNI	GTAC	3 cut(s)	103, 250, 727
RseI	CAYNNNNRTG	4 cut(s)	420, 1053, 1231, 1237
SaqAI	TTAA	3 cut(s)	254, 347, 1103
SatI	GCNGC	3 cut(s)	63, 183, 1260
Sau3AI	GATC	4 cut(s)	688, 745, 825, 833
SchI	GAGTC	3 cut(s)	280, 659, 716
ScrFI	CCNGG	2 cut(s)	243, 390
SduI	GDGCHC	4 cut(s)	72, 1244, 1277, 1306
SfaNI	GCATC	2 cut(s)	1104, 1161
SfcI	CTRYAG	1 cut(s)	1130
SmiMI	CAYNNNNRTG	4 cut(s)	420, 1053, 1231, 1237
Sse9I	AATT	7 cut(s)	337, 348, 462, 515, 684, 852, 1061
SsiI	CCGC	6 cut(s)	62, 65, 128, 182, 1212, 1254
SspI	AATATT	2 cut(s)	604, 651
SspMI	CTAG	3 cut(s)	276, 300, 801
StyD4I	CCNGG	2 cut(s)	241, 388
StyI	CCWWGG	5 cut(s)	168, 415, 472, 1201, 1232
TaaI	ACNGT	3 cut(s)	107, 160, 985
TaiI	ACGT	2 cut(s)	54, 924
TaqI	TCGA	2 cut(s)	26, 122
TasI	AATT	7 cut(s)	337, 348, 462, 515, 684, 852, 1061
TatI	WGTACW	1 cut(s)	249
TauI	GCSGC	2 cut(s)	65, 185
TfiI	GAWTC	3 cut(s)	196, 695, 1176
Tru1I	TTAA	3 cut(s)	254, 347, 1103
Tru9I	TTAA	3 cut(s)	254, 347, 1103
TscAI	CASTG	2 cut(s)	451, 1089
TseFI	GTSAC	4 cut(s)	73, 146, 154, 643
TseI	GCWGC	1 cut(s)	1259
Tsp45I	GTSAC	4 cut(s)	73, 146, 154, 643
TspDTI	ATGAA	7 cut(s)	113, 400, 419, 532, 958, 988, 1308
TspGWI	ACGGA	3 cut(s)	272, 809, 1027
TspRI	CASTG	2 cut(s)	451, 1089
Tth111I	GACNNNGTC	1 cut(s)	152
Van91I	CCANNNNNTGG	1 cut(s)	848
XapI	RAATTY	1 cut(s)	1061
XceI	RCATGY	1 cut(s)	496
XmiI	GTMKAC	1 cut(s)	1120
XspI	CTAG	3 cut(s)	276, 300, 801

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