Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0001539

Physical Location & Seq

Genomic Coordinates Reverse (-)

29081911 .. 29083578

Gene Structure 1668 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ48986

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1206 bp

ATGACTAAGCTTACAAGTTATTTTGCCACAGTTGTATTCATTTTTATACATATTCTATGCCAATCATCTGCTTCTGGTGATGAGACGACTACAAGTACTTACAATGTTTTGGAGTTTGAAGCTAAGAGCAATGGTGTAACCGATTCAACCCAAGCTTTTCTCAATGCTTGGTCAGTAGCCTGTGGTTCCTCCGCAGATTCCACTGAGATATATGTACCAAAGGGGAGGTATTTGCTCGCCGCTATGGCCTTTAAAGGCGACTGCAAAAGCTCACACATCACTTTTCGGATTGATGGAACACTCGTGGCTTCACCTGATTACCGAGTATTAGGCCAAGCTAACAACTGGTTGAGCTTTGAAGGAGTTAGCGGGGTAACCATTGTCGGAGGAGCACTTGATGCCAAAGGTTCCGCCTTATGGGCTTGCAAATTGAGTACCAAAACCACCAGTTGTCCTGATGGAGCCACGACTTTGAGTTTTACAAACTCCAAAGACATTAGAGTTGAAGGACTAATGTCACTGAACAGCCAAATGTTTCACATTGTGATAAACGGCTGCCAAGATGTACTGATTCAAGGCGTCAAAGTCATTGCCGCTGGAAATAGCCCAAACACTGATGGTATCCATGTCCAGTTATCTAGAAATGTTGCAATCTTCGACACCTCCATCAAAACTGGGGACGATTGTGTGTCTATTGGCCCCGGCACCAAGGACTTGTGGATGGAACGCATATCATGCGGACCTGGGCATGGCATTAGCATAGGGAGCCTGGCCAAAGACTTGGAAGAGGAAGGAGTCCAAAATGTAACACTCAAAAATGCGATTTTCAAGGGAACCACAAATGGTCTCAGGATAAAGTCCTGGGCAAGACCCAGCACAGGGTTTGTGCAAGGTGTCCGATTCCTTGATGTTGAAATGATTAAAGTCCAAAACCCCATTGTAATTGACCAGAATTACTGTCCACACAACCTCAACTGTCCTGGTCAGGTATCAGGTGTCAAAGTTAGCGACGTGTTGTACCAGAACATTCGAGGGACATCAGCAACAGCAGTCGCAATAAAATTTGATTGTAGTGCAGCAAATCCATGCAGTGGAGTAAAACTCGAAAACGTGAATTTGACTTGCCGGAACCAAGTAGTTCAATCATATTGTACCAATGTAAATGGAAAGAGTGTTGGCACTGTGCAACCAAGCAGTTGTTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

401

Amino Acids

42.68

Weight (kDa)

6.96

Isoelectric Point (pI)

26.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	35 - 80	7.2e-06	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	66 - 389	1.8e-85	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: OG0001539)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g22630
malus_domestica	MD12G1096500.v1.1
prunus_persica	Prupe.7G005500_v2.0.a1 Prupe.7G030700_v2.0.a1 Prupe.7G031900_v2.0.a1 Prupe.7G036000_v2.0.a1 Prupe.7G036300_v2.0.a1
pyrus_communis	pycom12g08540 pycom12g08550 pycom14g00130
rosa_chinensis	RchiOBHm_Chr2g0116641 RchiOBHm_Chr2g0116851 RchiOBHm_Chr2g0116891 RchiOBHm_Chr2g0116931 RchiOBHm_Chr2g0116951
rosa_laevigata	RLG00000018296 RLG00000018300 RLG00000018301 RLG00000018305 RLG00000018307 RLG00000018315 RLG00000032066
rosa_multiflora	Rmu_co8325457.1_g000001 Rmu_co8398115.1_g000001 Rmu_co8400735.1_g000001 Rmu_co8406615.1_g000001 Rmu_co8465195.1_g000001 Rmu_sc0002177.1_g000015 Rmu_sc0004942.1_g000013 Rmu_sc0011969.1_g000016 Rmu_sc0013102.1_g000010 Rmu_sc0016190.1_g000004 Rmu_ssc0000141.1_g000016 Rmu_ssc0000141.1_g000018 Rmu_ssc0000238.1_g000024 Rmu_ssc0000238.1_g000031
rosa_roxburghii	Rroxscaffold_2G00126930 Rroxscaffold_2G00126990 Rroxscaffold_6G00390380 Rroxscaffold_6G00390440 Rroxscaffold_6G00390460
rosa_rugosa	Rorug02G0208600 Rorug02G0208900 Rorug02G0208900
rosa_samantha	Rh2BG275400 Rh2BG275800 Rh2BG276100 Rh2BG276700
rosa_wichuraiana	Rw2G020840 Rw2G020860 Rw2G020890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1204
AccB1I	GGYRCC	1 cut(s)	704
AccB7I	CCANNNNNTGG	1 cut(s)	1091
AciI	CCGC	6 cut(s)	192, 240, 369, 411, 594, 738
AcoI	YGGCCR	1 cut(s)	771
AcsI	RAATTY	2 cut(s)	1061, 1114
AcyI	GRCGYC	1 cut(s)	579
AdeI	CACNNNGTG	1 cut(s)	544
AfaI	GTAC	6 cut(s)	97, 216, 436, 567, 1019, 1153
AfiI	CCNNNNNNNGG	5 cut(s)	417, 749, 878, 879, 1091
AflIII	ACRYGT	1 cut(s)	1011
AgsI	TTSAA	8 cut(s)	119, 147, 359, 506, 575, 829, 914, 1142
AjiI	CACGTC	1 cut(s)	1012
AjnI	CCWGG	4 cut(s)	742, 768, 860, 979
AluBI	AGCT	6 cut(s)	10, 122, 155, 270, 338, 354
AluI	AGCT	6 cut(s)	10, 122, 155, 270, 338, 354
Alw21I	GWGCWC	1 cut(s)	394
Alw26I	GTCTC	2 cut(s)	77, 851
AoxI	GGCC	4 cut(s)	246, 331, 697, 771
ApeKI	GCWGC	2 cut(s)	555, 1076
ApoI	RAATTY	2 cut(s)	1061, 1114
AspS9I	GGNCC	2 cut(s)	698, 740
AsuC2I	CCSGG	1 cut(s)	702
AsuHPI	GGTGA	2 cut(s)	89, 303
AvaII	GGWCC	1 cut(s)	740
BalI	TGGCCA	1 cut(s)	773
BanI	GGYRCC	1 cut(s)	704
BauI	CACGAG	1 cut(s)	302
Bbv12I	GWGCWC	1 cut(s)	394
BbvI	GCAGC	2 cut(s)	542, 1088
BccI	CCATC	5 cut(s)	287, 452, 611, 674, 715
BceAI	ACGGC	1 cut(s)	568
BciT130I	CCWGG	4 cut(s)	744, 770, 862, 981
BciVI	GTATCC	1 cut(s)	632
BcnI	CCSGG	1 cut(s)	702
BcoDI	GTCTC	2 cut(s)	77, 851
BfaI	CTAG	1 cut(s)	639
BfuI	GTATCC	1 cut(s)	632
BglI	GCCNNNNNGGC	2 cut(s)	245, 419
BisI	GCNGC	4 cut(s)	240, 556, 594, 1077
BlsI	GCNGC	4 cut(s)	241, 557, 595, 1078
BmcAI	AGTACT	1 cut(s)	97
Bme1390I	CCNGG	5 cut(s)	702, 744, 770, 862, 981
Bme18I	GGWCC	1 cut(s)	740
BmgBI	CACGTC	1 cut(s)	1012
BmgT120I	GGNCC	2 cut(s)	698, 740
BmiI	GGNNCC	8 cut(s)	187, 409, 463, 700, 706, 767, 835, 1130
BmrFI	CCNGG	5 cut(s)	702, 744, 770, 862, 981
BmrI	ACTGGG	1 cut(s)	684
BmsI	GCATC	1 cut(s)	388
BmuI	ACTGGG	1 cut(s)	684
BoxI	GACNNNNGTC	1 cut(s)	514
BplI	GAGNNNNNCTC	2 cut(s)	1086, 1118
BpuMI	CCSGG	1 cut(s)	702
BsaHI	GRCGYC	1 cut(s)	579
BsaI	GGTCTC	1 cut(s)	851
BsaJI	CCNNGG	4 cut(s)	700, 708, 743, 861
Bsc4I	CCNNNNNNNGG	5 cut(s)	417, 749, 878, 879, 1091
Bse1I	ACTGG	4 cut(s)	350, 447, 631, 679
Bse3DI	GCAATG	2 cut(s)	136, 588
BseBI	CCWGG	4 cut(s)	744, 770, 862, 981
BseDI	CCNNGG	4 cut(s)	700, 708, 743, 861
BseGI	GGATG	1 cut(s)	726
BseLI	CCNNNNNNNGG	5 cut(s)	417, 749, 878, 879, 1091
BseMI	GCAATG	2 cut(s)	136, 588
BseMII	CTCAG	2 cut(s)	195, 862
BseNI	ACTGG	4 cut(s)	350, 447, 631, 679
BseRI	GAGGAG	1 cut(s)	402
BseXI	GCAGC	2 cut(s)	542, 1088
BseYI	CCCAGC	1 cut(s)	872
BsgI	GTGCAG	1 cut(s)	1095
BshFI	GGCC	4 cut(s)	248, 333, 699, 773
BshNI	GGYRCC	1 cut(s)	704
BsiHKAI	GWGCWC	1 cut(s)	394
BsiSI	CCGG	2 cut(s)	702, 1126
BslFI	GGGAC	2 cut(s)	692, 1048
BslI	CCNNNNNNNGG	5 cut(s)	417, 749, 878, 879, 1091
BsmAI	GTCTC	2 cut(s)	77, 851
BsmBI	CGTCTC	1 cut(s)	77
BsmFI	GGGAC	2 cut(s)	692, 1048
BsnI	GGCC	4 cut(s)	248, 333, 699, 773
Bso31I	GGTCTC	1 cut(s)	851
Bsp1286I	GDGCHC	1 cut(s)	394
BspACI	CCGC	6 cut(s)	192, 240, 369, 411, 594, 738
BspANI	GGCC	4 cut(s)	248, 333, 699, 773
BspCNI	CTCAG	2 cut(s)	196, 861
BspLI	GGNNCC	8 cut(s)	187, 409, 463, 700, 706, 767, 835, 1130
BspT107I	GGYRCC	1 cut(s)	704
BspTNI	GGTCTC	1 cut(s)	851
BsrDI	GCAATG	2 cut(s)	136, 588
BsrI	ACTGG	4 cut(s)	350, 447, 631, 679
BssECI	CCNNGG	4 cut(s)	700, 708, 743, 861
BssNI	GRCGYC	1 cut(s)	579
BssSI	CACGAG	1 cut(s)	302
BssT1I	CCWWGG	1 cut(s)	708
Bst2BI	CACGAG	1 cut(s)	302
Bst2UI	CCWGG	4 cut(s)	744, 770, 862, 981
Bst4CI	ACNGT	4 cut(s)	31, 959, 977, 1183
Bst6I	CTCTTC	1 cut(s)	780
BstACI	GRCGYC	1 cut(s)	579
BstAPI	GCANNNNNTGC	2 cut(s)	398, 735
BstC8I	GCNNGC	2 cut(s)	237, 424
BstDEI	CTNAG	4 cut(s)	6, 123, 204, 848
BstEII	GGTNACC	1 cut(s)	373
BstF5I	GGATG	1 cut(s)	726
BstMAI	GTCTC	2 cut(s)	77, 851
BstMWI	GCNNNNNNNGC	5 cut(s)	245, 398, 419, 735, 765
BstNI	CCWGG	4 cut(s)	744, 770, 862, 981
BstPAI	GACNNNNGTC	1 cut(s)	514
BstPI	GGTNACC	1 cut(s)	373
BstSCI	CCNGG	5 cut(s)	700, 742, 768, 860, 979
BstV1I	GCAGC	2 cut(s)	542, 1088
BstXI	CCANNNNNNTGG	1 cut(s)	781
BsuI	GTATCC	1 cut(s)	632
BsuRI	GGCC	4 cut(s)	248, 333, 699, 773
BtrI	CACGTC	1 cut(s)	1012
BtsCI	GGATG	1 cut(s)	726
BtsI	GCAGTG	1 cut(s)	1096
BtsIMutI	CAGTG	5 cut(s)	201, 518, 612, 1096, 1179
Cac8I	GCNNGC	2 cut(s)	237, 424
Cfr13I	GGNCC	2 cut(s)	698, 740
CseI	GACGC	1 cut(s)	568
Csp6I	GTAC	6 cut(s)	96, 215, 435, 566, 1018, 1152
CviAII	CATG	4 cut(s)	626, 735, 749, 1086
CviQI	GTAC	6 cut(s)	96, 215, 435, 566, 1018, 1152
DdeI	CTNAG	4 cut(s)	6, 123, 204, 848
DraI	TTTAAA	1 cut(s)	253
DraIII	CACNNNGTG	1 cut(s)	544
EaeI	YGGCCR	1 cut(s)	771
Eam1104I	CTCTTC	1 cut(s)	780
EarI	CTCTTC	1 cut(s)	780
EciI	GGCGGA	1 cut(s)	400
Eco130I	CCWWGG	1 cut(s)	708
Eco31I	GGTCTC	1 cut(s)	851
Eco47I	GGWCC	1 cut(s)	740
Eco91I	GGTNACC	1 cut(s)	373
EcoO65I	GGTNACC	1 cut(s)	373
EcoRII	CCWGG	4 cut(s)	742, 768, 860, 979
EcoT14I	CCWWGG	1 cut(s)	708
ErhI	CCWWGG	1 cut(s)	708
Esp3I	CGTCTC	1 cut(s)	77
FaeI	CATG	4 cut(s)	629, 738, 752, 1089
FaqI	GGGAC	2 cut(s)	692, 1048
FatI	CATG	4 cut(s)	625, 734, 748, 1085
FauI	CCCGC	1 cut(s)	362
Fnu4HI	GCNGC	4 cut(s)	240, 556, 594, 1077
FokI	GGATG	1 cut(s)	733
Fsp4HI	GCNGC	4 cut(s)	240, 556, 594, 1077
FspBI	CTAG	1 cut(s)	639
GluI	GCNGC	4 cut(s)	240, 556, 594, 1077
GsaI	CCCAGC	1 cut(s)	876
HaeIII	GGCC	4 cut(s)	248, 333, 699, 773
HapII	CCGG	2 cut(s)	702, 1126
HgaI	GACGC	1 cut(s)	568
Hin1I	GRCGYC	1 cut(s)	579
Hin1II	CATG	4 cut(s)	629, 738, 752, 1089
HindIII	AAGCTT	2 cut(s)	8, 153
HinfI	GANTC	5 cut(s)	143, 197, 571, 795, 900
HpaII	CCGG	2 cut(s)	702, 1126
HphI	GGTGA	2 cut(s)	89, 303
Hpy166II	GTNNAC	1 cut(s)	962
Hpy188I	TCNGA	3 cut(s)	288, 386, 899
Hpy188III	TCNNGA	3 cut(s)	455, 639, 850
Hpy8I	GTNNAC	1 cut(s)	962
Hpy99I	CGWCG	1 cut(s)	1013
HpyAV	CCTTC	3 cut(s)	353, 500, 785
HpyCH4III	ACNGT	4 cut(s)	31, 959, 977, 1183
HpyCH4IV	ACGT	2 cut(s)	1011, 1110
HpyCH4V	TGCA	7 cut(s)	264, 426, 650, 889, 1076, 1089, 1186
HpyF10VI	GCNNNNNNNGC	5 cut(s)	245, 398, 419, 735, 765
HpyF3I	CTNAG	4 cut(s)	6, 123, 204, 848
HpySE526I	ACGT	2 cut(s)	1011, 1110
Hsp92I	GRCGYC	1 cut(s)	579
Hsp92II	CATG	4 cut(s)	629, 738, 752, 1089
LmnI	GCTCC	3 cut(s)	389, 461, 765
Lsp1109I	GCAGC	2 cut(s)	542, 1088
LweI	GCATC	1 cut(s)	388
MaeI	CTAG	1 cut(s)	639
MaeII	ACGT	2 cut(s)	1011, 1110
MaeIII	GTNAC	4 cut(s)	136, 373, 516, 805
MboII	GAAGA	2 cut(s)	646, 797
MhlI	GDGCHC	1 cut(s)	394
MlsI	TGGCCA	1 cut(s)	773
MluCI	AATT	5 cut(s)	428, 942, 952, 1061, 1114
MluNI	TGGCCA	1 cut(s)	773
MlyI	GAGTC	1 cut(s)	804
MmeI	TCCRAC	1 cut(s)	364
MnlI	CCTC	7 cut(s)	199, 219, 380, 673, 781, 980, 1025
Mox20I	TGGCCA	1 cut(s)	773
MscI	TGGCCA	1 cut(s)	773
MseI	TTAA	2 cut(s)	252, 921
Msp20I	TGGCCA	1 cut(s)	773
MspA1I	CMGCKG	1 cut(s)	596
MspI	CCGG	2 cut(s)	702, 1126
MspR9I	CCNGG	5 cut(s)	702, 744, 770, 862, 981
MvaI	CCWGG	4 cut(s)	744, 770, 862, 981
MwoI	GCNNNNNNNGC	5 cut(s)	245, 398, 419, 735, 765
NciI	CCSGG	1 cut(s)	702
NlaIII	CATG	4 cut(s)	629, 738, 752, 1089
NlaIV	GGNNCC	8 cut(s)	187, 409, 463, 700, 706, 767, 835, 1130
NmuCI	GTSAC	1 cut(s)	516
PfeI	GAWTC	4 cut(s)	143, 197, 571, 900
PflMI	CCANNNNNTGG	1 cut(s)	1091
PkrI	GCNGC	4 cut(s)	241, 557, 595, 1078
PleI	GAGTC	1 cut(s)	803
PpsI	GAGTC	1 cut(s)	803
PshAI	GACNNNNGTC	1 cut(s)	514
PsiI	TTATAA	1 cut(s)	1204
Psp6I	CCWGG	4 cut(s)	742, 768, 860, 979
PspEI	GGTNACC	1 cut(s)	373
PspFI	CCCAGC	1 cut(s)	872
PspGI	CCWGG	4 cut(s)	742, 768, 860, 979
PspN4I	GGNNCC	8 cut(s)	187, 409, 463, 700, 706, 767, 835, 1130
PspPI	GGNCC	2 cut(s)	698, 740
RsaI	GTAC	6 cut(s)	97, 216, 436, 567, 1019, 1153
RsaNI	GTAC	6 cut(s)	96, 215, 435, 566, 1018, 1152
SaqAI	TTAA	2 cut(s)	252, 921
SatI	GCNGC	4 cut(s)	240, 556, 594, 1077
Sau96I	GGNCC	2 cut(s)	698, 740
ScaI	AGTACT	1 cut(s)	97
SchI	GAGTC	1 cut(s)	804
ScrFI	CCNGG	5 cut(s)	702, 744, 770, 862, 981
SduI	GDGCHC	1 cut(s)	394
SfaNI	GCATC	1 cut(s)	388
SinI	GGWCC	1 cut(s)	740
Sse9I	AATT	5 cut(s)	428, 942, 952, 1061, 1114
SsiI	CCGC	6 cut(s)	192, 240, 369, 411, 594, 738
SspMI	CTAG	1 cut(s)	639
StyD4I	CCNGG	5 cut(s)	700, 742, 768, 860, 979
StyI	CCWWGG	1 cut(s)	708
TaaI	ACNGT	4 cut(s)	31, 959, 977, 1183
TaiI	ACGT	2 cut(s)	1014, 1113
TaqI	TCGA	3 cut(s)	657, 1030, 1104
TasI	AATT	5 cut(s)	428, 942, 952, 1061, 1114
TatI	WGTACW	2 cut(s)	95, 565
TauI	GCSGC	2 cut(s)	242, 596
TfiI	GAWTC	4 cut(s)	143, 197, 571, 900
Tru1I	TTAA	2 cut(s)	252, 921
Tru9I	TTAA	2 cut(s)	252, 921
TscAI	CASTG	5 cut(s)	208, 525, 619, 1096, 1186
TseFI	GTSAC	1 cut(s)	516
TseI	GCWGC	2 cut(s)	555, 1076
Tsp45I	GTSAC	1 cut(s)	516
TspDTI	ATGAA	1 cut(s)	28
TspRI	CASTG	5 cut(s)	208, 525, 619, 1096, 1186
Van91I	CCANNNNNTGG	1 cut(s)	1091
VpaK11BI	GGWCC	1 cut(s)	740
XapI	RAATTY	2 cut(s)	1061, 1114
XbaI	TCTAGA	1 cut(s)	638
XspI	CTAG	1 cut(s)	639
ZrmI	AGTACT	1 cut(s)	97

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