Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0003318

Physical Location & Seq

Genomic Coordinates Forward (+)

27801856 .. 27808024

Gene Structure 6169 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ44662

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1356 bp

ATGTCACTTAAAAAATTTCTTCTCTCAATATTCATCATCATCATCATCAATATCATCTCTTCAATTTCATGTGACAGAAGTACTAATTTGCAAGAGAACACACTTGAGGATTTTGTTGATGAAGCATCAGGTACTGGATATGATTCCCAAGCGTATCCTTCATACTGGAGCATGATTGATGACAGCAAGGACTTGATCGAGCAAAGTACTGATGATGTCCTCACTTTGAAGAGCTCTGATCAAGTGGCAGTTACCACAGTCAGTGTTCATGATTTTGGAGCTAAGGGTGATGGAGAAACTGATGACACAGAGGCGTTTGTGAAGGCATGGAAGGTAGCTTGTTCGTCTAAGAATGCAGCTGTTTTGGTGGTGCCTCAGAAGATCTATTGGCTTAAACCGATTAGATTTTCAGGTCCTTGCTTATCTCAATTGATGGTGCAGATTGTTGGTACCTTAGAAGCGTCGGATGATCGATCTGACTTCCGCCAAGATGGTAAACACTGGCTTATTTTTGATAGTGTTCGGAAGTTACTGCTTGATGGTGGTGGAACCATCAATGGCAATGGCAAGGAATGGTGGCAGAACTCATGCAAAATCAATAAATCTAAGGCACTTGCGTTCTATAAATGTAAGGATTTGATAGTGAAGAATCTAAAGATACAAGATGCTCAGCAAATTCATTTGTCTTTCCAGAAGTGCATGAACGTTCTAGCTTCCAATCTCTCAATTACTGCACCAGAGAAAAGCCCCAACACCGATGGAATTCATGTTACAAATACTCAAGACATACTCATCACAACCTCTATTATATCCACTGGTGATGATTGTATTTCAATTGTAAGTGGATCCGAAAAGGTGCAAGCAATGAACATAACCTGCGGACCTGGACATGGAATCAGTATCGGAAGCTTGGGATCTGGAAAATCAGAAGCTTATGTTTCTGAAGTTGCTCTATATGGAGCTAAACTAATTGGAACCACAAATGGAGTCAGGATCAAGACTTGGCAGGGAGGATCTGGTAGTGCAAACAACATCACATTTGAGAACATTGAAATGCTTGATGTTACCAACCCCATCCTAATAGATCAATACTATTGTGACAGCAAGAAGCCATGTAAAGAACAGAAATCGGCAGTTCAAGTGCAAAATGTATTGTACAAGAACATCAAAGGAACAAGTGCCTCAGACGTTGCTATTAAGTTTGATTGCAGCAAGAACTTTCCTTGTCAGGGTATTGTGTTGCAAGACATTAAACTTGAGCATGGAGGAGGGAAAACAGCTAAAGCATTATGCAACAATATTAATTTCACTAGCATAGGAGTTGTTTCCCCTCTCTGTTATCAAGCGAAACTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004553 GO:0004650 GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0007275 GO:0008150 GO:0009664 GO:0009791 GO:0009827 GO:0009830 GO:0009838 GO:0009900 GO:0009901 GO:0009908 GO:0009987 GO:0010047 GO:0010227 GO:0016043 GO:0016787 GO:0016798 GO:0022411 GO:0022414 GO:0030312 GO:0032501 GO:0032502 GO:0032504 GO:0042545 GO:0044277 GO:0044464 GO:0045229 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048609 GO:0048653 GO:0048731 GO:0048827 GO:0048856 GO:0061458 GO:0071554 GO:0071555 GO:0071669 GO:0071840 GO:0071944 GO:0090567 GO:0099402

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

451

Amino Acids

49.07

Weight (kDa)

5.93

Isoelectric Point (pI)

30.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	87 - 299	7.4e-08	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	114 - 435	2.1e-100	Glycosyl hydrolases family 28

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003318)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G41850
fragaria_vesca	FvH4_2g20930 FvH4_2g20930 FvH4_6g23580
malus_domestica	MD05G1192600.v1.1 MD10G1179100.v1.1 MD12G1077400.v1.1 MD12G1077600.v1.1
prunus_persica	Prupe.7G063900_v2.0.a1 Prupe.8G218900_v2.0.a1
pyrus_communis	pycom05g17960 pycom10g15530 pycom12g06230
rosa_chinensis	RchiOBHm_Chr3g0481691 RchiOBHm_Chr6g0287311
rosa_laevigata	RLG00000012502 RLG00000023383
rosa_multiflora	Rmu_sc0007029.1_g000032 Rmu_ssc0000267.1_g000001
rosa_roxburghii	Rroxscaffold_6G00399870 Rroxscaffold_6G00400230 Rroxscaffold_7G00181550
rosa_rugosa	Rorug03G0193400 Rorug06G0186800 Rorug06G0186900
rosa_samantha	Rh3AG244500 Rh3BG279600 Rh3CG274700 Rh3DG271500 Rh6AG298300 Rh6BG303700 Rh6CG306100 Rh6CG312000 Rh6DG295600
rosa_wichuraiana	Rw3G021820 Rw6G025780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	884
Acc65I	GGTACC	1 cut(s)	449
AccB1I	GGYRCC	2 cut(s)	370, 449
AciI	CCGC	2 cut(s)	484, 879
AclI	AACGTT	1 cut(s)	705
AclWI	GGATC	5 cut(s)	840, 853, 922, 1001, 1021
AcsI	RAATTY	3 cut(s)	14, 675, 762
AcuI	CTGAAG	1 cut(s)	963
AfaI	GTAC	5 cut(s)	82, 133, 208, 451, 1157
AfiI	CCNNNNNNNGG	2 cut(s)	890, 1229
AgsI	TTSAA	5 cut(s)	63, 229, 834, 1052, 1139
AjnI	CCWGG	1 cut(s)	883
AluBI	AGCT	9 cut(s)	234, 281, 338, 359, 713, 909, 932, 962, 1280
AluI	AGCT	9 cut(s)	234, 281, 338, 359, 713, 909, 932, 962, 1280
Alw21I	GWGCWC	1 cut(s)	236
AlwI	GGATC	5 cut(s)	840, 853, 922, 1001, 1021
AlwNI	CAGNNNCTG	1 cut(s)	134
ApeKI	GCWGC	2 cut(s)	356, 1209
ApoI	RAATTY	3 cut(s)	14, 675, 762
AseI	ATTAAT	1 cut(s)	1302
Asp718I	GGTACC	1 cut(s)	449
AspS9I	GGNCC	2 cut(s)	413, 881
AsuHPI	GGTGA	2 cut(s)	299, 830
AvaII	GGWCC	2 cut(s)	413, 881
BamHI	GGATCC	1 cut(s)	845
BanI	GGYRCC	2 cut(s)	370, 449
BanII	GRGCYC	1 cut(s)	236
Bbv12I	GWGCWC	1 cut(s)	236
BbvI	GCAGC	2 cut(s)	368, 1221
BccI	CCATC	7 cut(s)	284, 427, 485, 533, 560, 752, 1082
BciT130I	CCWGG	1 cut(s)	885
BciVI	GTATCC	1 cut(s)	165
BclI	TGATCA	1 cut(s)	238
BfaI	CTAG	2 cut(s)	710, 1311
BfuAI	ACCTGC	1 cut(s)	884
BfuI	GTATCC	1 cut(s)	165
BglII	AGATCT	1 cut(s)	381
BisI	GCNGC	2 cut(s)	357, 1210
BlpI	GCTNAGC	1 cut(s)	669
BlsI	GCNGC	2 cut(s)	358, 1211
BmcAI	AGTACT	2 cut(s)	82, 208
Bme1390I	CCNGG	1 cut(s)	885
Bme18I	GGWCC	2 cut(s)	413, 881
BmgT120I	GGNCC	2 cut(s)	413, 881
BmiI	GGNNCC	5 cut(s)	372, 451, 550, 847, 976
BmrFI	CCNGG	1 cut(s)	885
BmsI	GCATC	2 cut(s)	134, 655
BpmI	CTGGAG	1 cut(s)	187
Bpu10I	CCTNAGC	1 cut(s)	282
Bpu1102I	GCTNAGC	1 cut(s)	669
BpuEI	CTTGAG	3 cut(s)	125, 765, 1277
Bsa29I	ATCGAT	1 cut(s)	472
Bsc4I	CCNNNNNNNGG	2 cut(s)	890, 1229
Bse1I	ACTGG	4 cut(s)	139, 170, 506, 820
Bse3DI	GCAATG	2 cut(s)	568, 870
BseBI	CCWGG	1 cut(s)	885
BseCI	ATCGAT	1 cut(s)	472
BseGI	GGATG	2 cut(s)	472, 1074
BseLI	CCNNNNNNNGG	2 cut(s)	890, 1229
BseMI	GCAATG	2 cut(s)	568, 870
BseMII	CTCAG	3 cut(s)	389, 683, 1197
BseNI	ACTGG	4 cut(s)	139, 170, 506, 820
BseRI	GAGGAG	1 cut(s)	1281
BseXI	GCAGC	2 cut(s)	368, 1221
BsgI	GTGCAG	2 cut(s)	458, 717
BshNI	GGYRCC	2 cut(s)	370, 449
BshVI	ATCGAT	1 cut(s)	472
BsiHKAI	GWGCWC	1 cut(s)	236
BslI	CCNNNNNNNGG	2 cut(s)	890, 1229
BsmI	GAATGC	1 cut(s)	358
Bsp1286I	GDGCHC	1 cut(s)	236
Bsp1407I	TGTACA	1 cut(s)	1155
Bsp1720I	GCTNAGC	1 cut(s)	669
BspACI	CCGC	2 cut(s)	484, 879
BspCNI	CTCAG	3 cut(s)	388, 682, 1196
BspDI	ATCGAT	1 cut(s)	472
BspHI	TCATGA	1 cut(s)	268
BspLI	GGNNCC	5 cut(s)	372, 451, 550, 847, 976
BspMI	ACCTGC	1 cut(s)	884
BspPI	GGATC	5 cut(s)	840, 853, 922, 1001, 1021
BspQI	GCTCTTC	1 cut(s)	224
BspT107I	GGYRCC	2 cut(s)	370, 449
BsrDI	GCAATG	2 cut(s)	568, 870
BsrGI	TGTACA	1 cut(s)	1155
BsrI	ACTGG	4 cut(s)	139, 170, 506, 820
Bst2UI	CCWGG	1 cut(s)	885
Bst4CI	ACNGT	1 cut(s)	259
Bst6I	CTCTTC	2 cut(s)	64, 224
BstAUI	TGTACA	1 cut(s)	1155
BstC8I	GCNNGC	1 cut(s)	861
BstDEI	CTNAG	7 cut(s)	282, 348, 375, 454, 606, 669, 1183
BstF5I	GGATG	2 cut(s)	472, 1074
BstNI	CCWGG	1 cut(s)	885
BstSCI	CCNGG	1 cut(s)	883
BstV1I	GCAGC	2 cut(s)	368, 1221
BstX2I	RGATCY	4 cut(s)	381, 845, 914, 1013
BstYI	RGATCY	4 cut(s)	381, 845, 914, 1013
Bsu15I	ATCGAT	1 cut(s)	472
BsuI	GTATCC	1 cut(s)	165
BsuTUI	ATCGAT	1 cut(s)	472
BtsCI	GGATG	2 cut(s)	472, 1074
BtsIMutI	CAGTG	3 cut(s)	268, 499, 813
BveI	ACCTGC	1 cut(s)	884
Cac8I	GCNNGC	1 cut(s)	861
CaiI	CAGNNNCTG	1 cut(s)	134
CciI	TCATGA	1 cut(s)	268
Cfr13I	GGNCC	2 cut(s)	413, 881
ClaI	ATCGAT	1 cut(s)	472
CseI	GACGC	1 cut(s)	450
Csp6I	GTAC	5 cut(s)	81, 132, 207, 450, 1156
CviQI	GTAC	5 cut(s)	81, 132, 207, 450, 1156
DdeI	CTNAG	7 cut(s)	282, 348, 375, 454, 606, 669, 1183
Eam1104I	CTCTTC	2 cut(s)	64, 224
EarI	CTCTTC	2 cut(s)	64, 224
EciI	GGCGGA	1 cut(s)	473
Ecl136II	GAGCTC	1 cut(s)	234
Eco24I	GRGCYC	1 cut(s)	236
Eco47I	GGWCC	2 cut(s)	413, 881
Eco53kI	GAGCTC	1 cut(s)	234
Eco57I	CTGAAG	1 cut(s)	963
EcoICRI	GAGCTC	1 cut(s)	234
EcoO109I	RGGNCCY	1 cut(s)	413
EcoRI	GAATTC	1 cut(s)	762
EcoRII	CCWGG	1 cut(s)	883
EcoT38I	GRGCYC	1 cut(s)	236
FbaI	TGATCA	1 cut(s)	238
Fnu4HI	GCNGC	2 cut(s)	357, 1210
FokI	GGATG	2 cut(s)	479, 1061
FriOI	GRGCYC	1 cut(s)	236
Fsp4HI	GCNGC	2 cut(s)	357, 1210
FspBI	CTAG	2 cut(s)	710, 1311
GluI	GCNGC	2 cut(s)	357, 1210
GsuI	CTGGAG	1 cut(s)	187
HgaI	GACGC	1 cut(s)	450
HindIII	AAGCTT	2 cut(s)	907, 930
HinfI	GANTC	4 cut(s)	143, 649, 894, 987
HphI	GGTGA	2 cut(s)	299, 830
Hpy166II	GTNNAC	1 cut(s)	497
Hpy188III	TCNNGA	6 cut(s)	269, 691, 782, 918, 991, 997
Hpy8I	GTNNAC	1 cut(s)	497
Hpy99I	CGWCG	1 cut(s)	466
HpyAV	CCTTC	3 cut(s)	168, 316, 325
HpyCH4III	ACNGT	1 cut(s)	259
HpyCH4IV	ACGT	2 cut(s)	705, 1188
HpyF3I	CTNAG	7 cut(s)	282, 348, 375, 454, 606, 669, 1183
HpySE526I	ACGT	2 cut(s)	705, 1188
KpnI	GGTACC	1 cut(s)	453
Ksp22I	TGATCA	1 cut(s)	238
LguI	GCTCTTC	1 cut(s)	224
LmnI	GCTCC	3 cut(s)	168, 278, 959
Lsp1109I	GCAGC	2 cut(s)	368, 1221
LweI	GCATC	2 cut(s)	134, 655
MaeI	CTAG	2 cut(s)	710, 1311
MaeII	ACGT	2 cut(s)	705, 1188
MaeIII	GTNAC	7 cut(s)	3, 71, 250, 528, 769, 1063, 1097
MboII	GAAGA	5 cut(s)	11, 51, 241, 391, 658
MfeI	CAATTG	2 cut(s)	428, 834
MflI	RGATCY	4 cut(s)	381, 845, 914, 1013
MhlI	GDGCHC	1 cut(s)	236
MlyI	GAGTC	1 cut(s)	996
MmeI	TCCRAC	1 cut(s)	444
MseI	TTAA	5 cut(s)	9, 393, 1197, 1251, 1302
MslI	CAYNNNNRTG	1 cut(s)	1052
MspA1I	CMGCKG	1 cut(s)	359
MspR9I	CCNGG	1 cut(s)	885
MunI	CAATTG	2 cut(s)	428, 834
Mva1269I	GAATGC	1 cut(s)	358
MvaI	CCWGG	1 cut(s)	885
NlaIV	GGNNCC	5 cut(s)	372, 451, 550, 847, 976
NmuCI	GTSAC	3 cut(s)	3, 71, 1097
PagI	TCATGA	1 cut(s)	268
PciSI	GCTCTTC	1 cut(s)	224
PctI	GAATGC	1 cut(s)	358
PfeI	GAWTC	3 cut(s)	143, 649, 894
PkrI	GCNGC	2 cut(s)	358, 1211
PleI	GAGTC	1 cut(s)	995
PpsI	GAGTC	1 cut(s)	995
PpuMI	RGGWCCY	1 cut(s)	413
PshBI	ATTAAT	1 cut(s)	1302
Psp124BI	GAGCTC	1 cut(s)	236
Psp1406I	AACGTT	1 cut(s)	705
Psp5II	RGGWCCY	1 cut(s)	413
Psp6I	CCWGG	1 cut(s)	883
PspGI	CCWGG	1 cut(s)	883
PspN4I	GGNNCC	5 cut(s)	372, 451, 550, 847, 976
PspPI	GGNCC	2 cut(s)	413, 881
PspPPI	RGGWCCY	1 cut(s)	413
PstNI	CAGNNNCTG	1 cut(s)	134
PsuI	RGATCY	4 cut(s)	381, 845, 914, 1013
PvuII	CAGCTG	1 cut(s)	359
RsaI	GTAC	5 cut(s)	82, 133, 208, 451, 1157
RsaNI	GTAC	5 cut(s)	81, 132, 207, 450, 1156
RseI	CAYNNNNRTG	1 cut(s)	1052
SacI	GAGCTC	1 cut(s)	236
SapI	GCTCTTC	1 cut(s)	224
SaqAI	TTAA	5 cut(s)	9, 393, 1197, 1251, 1302
SatI	GCNGC	2 cut(s)	357, 1210
Sau96I	GGNCC	2 cut(s)	413, 881
ScaI	AGTACT	2 cut(s)	82, 208
SchI	GAGTC	1 cut(s)	996
ScrFI	CCNGG	1 cut(s)	885
SduI	GDGCHC	1 cut(s)	236
SfaNI	GCATC	2 cut(s)	134, 655
SinI	GGWCC	2 cut(s)	413, 881
SmiMI	CAYNNNNRTG	1 cut(s)	1052
SmlI	CTYRAG	3 cut(s)	104, 780, 1256
SmoI	CTYRAG	3 cut(s)	104, 780, 1256
SsiI	CCGC	2 cut(s)	484, 879
SspI	AATATT	2 cut(s)	30, 1300
SspMI	CTAG	2 cut(s)	710, 1311
SstI	GAGCTC	1 cut(s)	236
StyD4I	CCNGG	1 cut(s)	883
TaaI	ACNGT	1 cut(s)	259
TaiI	ACGT	2 cut(s)	708, 1191
TaqI	TCGA	2 cut(s)	198, 472
TatI	WGTACW	3 cut(s)	80, 206, 1155
TfiI	GAWTC	3 cut(s)	143, 649, 894
Tru1I	TTAA	5 cut(s)	9, 393, 1197, 1251, 1302
Tru9I	TTAA	5 cut(s)	9, 393, 1197, 1251, 1302
TscAI	CASTG	3 cut(s)	268, 506, 820
TseFI	GTSAC	3 cut(s)	3, 71, 1097
TseI	GCWGC	2 cut(s)	356, 1209
Tsp45I	GTSAC	3 cut(s)	3, 71, 1097
TspDTI	ATGAA	9 cut(s)	22, 57, 135, 150, 257, 668, 716, 755, 881
TspRI	CASTG	3 cut(s)	268, 506, 820
VpaK11BI	GGWCC	2 cut(s)	413, 881
VspI	ATTAAT	1 cut(s)	1302
XapI	RAATTY	3 cut(s)	14, 675, 762
XspI	CTAG	2 cut(s)	710, 1311
ZrmI	AGTACT	2 cut(s)	82, 208

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