Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0009066

Physical Location & Seq

Genomic Coordinates Reverse (-)

269609 .. 271126

Gene Structure 1518 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015627

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1191 bp

ATGGCTATCATCAATCACTGCGCGTGCCTACTACTTATCTCTCTCTTCTTCATGATATCCTTGTTCGGGTTATCGAATGCAGCCACAACTTATAATGTGATGAAATATGGTGCAAAAGCAGATGGGAAAACAGACTCAACCCAAGCATTTGTCAAGACATGGGCAGCAGCATGCAGCTCTGCTCAGACAGCCACCATGTACGTTCCCAAAGGAAGGTTCTTGCTAAAAGCTGCAGTGTTCAGAGGCCCTTGCAAGAGTAGAATTAACGTTCAGATATACGGAACCCTGATTGCCCCTACTGATTATTGGGCTCTGGGAAACTCCGGCTATTGGATCTTATTCATTAAGGTCAATAGACTTGCAGTTTTCGGTGGTACACTCGACGCCAAGGGAGCTGGCTTTTGGGCTTGCAGGAAATCCGGAAAGAGCTGCCCTGTTGGAGCTAGGTCGATAACGTTCAATTGGGCAAATGACGTTGTGATTAGTGGTTTAGTATCCATCAACAGTCAGCAAACTCATCTTGTGATCAACAGCTGCAACAATGTGGTGGTCCGAAACGTTAAGCTGGTTGCTCCGGATGACAGCCCCAACACTGATGGCATTCATGTTCAGAGCTCAACTGGTGTTACTATCACTGGCGCAACCTTGCAAACCGGAGACGATTGTGTATCAATTGGTCCGGGCACCAAAAACCTCTACATGAGTAACATCAAGTGCGGCCCAGGACATGGCGTAAGCATTGGTAGTCTAGGCAACGCAGTGAACGAAGCCGGGGTCCAGAATGTGACGTTGACGAATGCAGTTTTCACTGGATCAGACAATGGAGTACGAATAAAGTCATGGGCCAGGCCCAGCAATAGTTTTGTGACGAACATTCTCTTCCAGAACATCATGATGAGGAACGTTGCGAACCCCATCATCATCGATCAGAACTATTGCCCAAATAACGAAGGTTGCCCTAACCAGAGTTCTGGTGTGAAGATTAGTCAAGTGACATACAAGAATATACAAGGGACGTCGGCAACGGCGGAGGCAGTGACATTTGATTGCAGCCCAAGTAATCCGTGCAGAGGGATTAGATTGCAAGACATCAAGCTTACATACATGAATACGGTAGCCACATCTTCATGCAAGAACATTGGTGGAAGCAGCACCGGAGTGCTCATGCCCCAGAGTTGCGTGAGAAGTTGA

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

397

Amino Acids

42.04

Weight (kDa)

9.25

Isoelectric Point (pI)

36.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	32 - 279	3.3e-10	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	58 - 381	2.8e-91	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: OG0009066)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43890
fragaria_vesca	FvH4_1g00260 FvH4_7g26550
malus_domestica	MD00G1087800.v1.1 MD15G1143800.v1.1
prunus_persica	Prupe.7G269400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0084561 RchiOBHm_Chr2g0149621
rosa_laevigata	RLG00000015627 RLG00000020431
rosa_multiflora	Rmu_sc0006867.1_g000032
rosa_roxburghii	Rroxscaffold_2G00097870 Rroxscaffold_2G00155960
rosa_rugosa	Rorug01G0455100 Rorug02G0413500
rosa_samantha	Rh2BG485700 Rh2CG003200 Rh2DG003200
rosa_wichuraiana	Rw2G000280 Rw2G038630 Rw7G041010 Rw7G041030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	93
AatII	GACGTC	1 cut(s)	1019
AccB1I	GGYRCC	1 cut(s)	683
AccB7I	CCANNNNNTGG	1 cut(s)	728
AccII	CGCG	1 cut(s)	23
AccIII	TCCGGA	2 cut(s)	419, 574
AciI	CCGC	2 cut(s)	717, 1028
AclI	AACGTT	4 cut(s)	267, 455, 558, 903
AclWI	GGATC	2 cut(s)	341, 820
AcyI	GRCGYC	2 cut(s)	384, 1016
AfaI	GTAC	3 cut(s)	200, 376, 828
AfiI	CCNNNNNNNGG	5 cut(s)	66, 213, 330, 728, 1070
AgsI	TTSAA	1 cut(s)	460
AjnI	CCWGG	2 cut(s)	721, 845
AjuI	GAANNNNNNNTTGG	2 cut(s)	200, 232
AleI	CACNNNNGTG	1 cut(s)	1157
AluBI	AGCT	9 cut(s)	177, 230, 395, 429, 443, 534, 565, 615, 1096
AluI	AGCT	9 cut(s)	177, 230, 395, 429, 443, 534, 565, 615, 1096
Alw21I	GWGCWC	2 cut(s)	617, 1164
Alw26I	GTCTC	1 cut(s)	651
AlwI	GGATC	2 cut(s)	341, 820
Aor13HI	TCCGGA	2 cut(s)	419, 574
AoxI	GGCC	4 cut(s)	244, 718, 843, 848
ApeKI	GCWGC	9 cut(s)	80, 164, 167, 174, 230, 429, 534, 1050, 1149
ArsI	GACNNNNNNTTYG	2 cut(s)	759, 791
AspLEI	GCGC	2 cut(s)	23, 641
AspS9I	GGNCC	7 cut(s)	245, 550, 677, 719, 775, 843, 849
AsuC2I	CCSGG	2 cut(s)	681, 772
AvaII	GGWCC	3 cut(s)	550, 677, 775
BaeGI	GKGCMC	1 cut(s)	686
BanI	GGYRCC	1 cut(s)	683
BanII	GRGCYC	2 cut(s)	313, 617
Bbv12I	GWGCWC	2 cut(s)	617, 1164
BbvI	GCAGC	9 cut(s)	92, 176, 179, 186, 217, 416, 521, 1062, 1161
BccI	CCATC	4 cut(s)	116, 506, 590, 923
BceAI	ACGGC	1 cut(s)	1041
BciT130I	CCWGG	2 cut(s)	723, 847
BciVI	GTATCC	1 cut(s)	505
BclI	TGATCA	1 cut(s)	525
BcnI	CCSGG	2 cut(s)	681, 772
BcoDI	GTCTC	1 cut(s)	651
BfaI	CTAG	2 cut(s)	444, 749
BfmI	CTRYAG	1 cut(s)	231
BfuI	GTATCC	1 cut(s)	505
Bme1390I	CCNGG	4 cut(s)	681, 723, 772, 847
Bme18I	GGWCC	3 cut(s)	550, 677, 775
BmgT120I	GGNCC	7 cut(s)	245, 550, 677, 719, 775, 843, 849
BmiI	GGNNCC	3 cut(s)	283, 685, 776
BmrFI	CCNGG	4 cut(s)	681, 723, 772, 847
BpuMI	CCSGG	2 cut(s)	681, 772
Bsa29I	ATCGAT	1 cut(s)	924
BsaHI	GRCGYC	2 cut(s)	384, 1016
BsaJI	CCNNGG	3 cut(s)	387, 721, 771
BsaWI	WCCGGW	4 cut(s)	419, 574, 653, 1154
Bsc4I	CCNNNNNNNGG	5 cut(s)	66, 213, 330, 728, 1070
Bse1I	ACTGG	3 cut(s)	625, 640, 814
BseAI	TCCGGA	2 cut(s)	419, 574
BseBI	CCWGG	2 cut(s)	723, 847
BseCI	ATCGAT	1 cut(s)	924
BseDI	CCNNGG	3 cut(s)	387, 721, 771
BseGI	GGATG	1 cut(s)	583
BseLI	CCNNNNNNNGG	5 cut(s)	66, 213, 330, 728, 1070
BseMII	CTCAG	1 cut(s)	197
BseNI	ACTGG	3 cut(s)	625, 640, 814
BseSI	GKGCMC	1 cut(s)	686
BseXI	GCAGC	9 cut(s)	92, 176, 179, 186, 217, 416, 521, 1062, 1161
BseYI	CCCAGC	1 cut(s)	851
BsgI	GTGCAG	1 cut(s)	1087
Bsh1236I	CGCG	1 cut(s)	23
BshFI	GGCC	4 cut(s)	246, 720, 845, 850
BshNI	GGYRCC	1 cut(s)	683
BshVI	ATCGAT	1 cut(s)	924
BsiHKAI	GWGCWC	2 cut(s)	617, 1164
BsiSI	CCGG	7 cut(s)	324, 420, 575, 654, 680, 771, 1155
BslFI	GGGAC	1 cut(s)	1027
BslI	CCNNNNNNNGG	5 cut(s)	66, 213, 330, 728, 1070
BsmAI	GTCTC	1 cut(s)	651
BsmBI	CGTCTC	1 cut(s)	651
BsmFI	GGGAC	1 cut(s)	1027
BsmI	GAATGC	3 cut(s)	82, 600, 802
BsnI	GGCC	4 cut(s)	246, 720, 845, 850
Bsp1286I	GDGCHC	4 cut(s)	313, 617, 686, 1164
Bsp13I	TCCGGA	2 cut(s)	419, 574
Bsp143I	GATC	4 cut(s)	333, 525, 812, 925
BspACI	CCGC	2 cut(s)	717, 1028
BspANI	GGCC	4 cut(s)	246, 720, 845, 850
BspCNI	CTCAG	1 cut(s)	196
BspDI	ATCGAT	1 cut(s)	924
BspEI	TCCGGA	2 cut(s)	419, 574
BspFNI	CGCG	1 cut(s)	23
BspHI	TCATGA	2 cut(s)	51, 891
BspLI	GGNNCC	3 cut(s)	283, 685, 776
BspMAI	CTGCAG	1 cut(s)	235
BspPI	GGATC	2 cut(s)	341, 820
BspT107I	GGYRCC	1 cut(s)	683
BsrI	ACTGG	3 cut(s)	625, 640, 814
BssECI	CCNNGG	3 cut(s)	387, 721, 771
BssMI	GATC	4 cut(s)	333, 525, 812, 925
BssNI	GRCGYC	2 cut(s)	384, 1016
BssT1I	CCWWGG	1 cut(s)	387
Bst2UI	CCWGG	2 cut(s)	723, 847
Bst4CI	ACNGT	2 cut(s)	506, 1114
Bst6I	CTCTTC	2 cut(s)	50, 884
BstACI	GRCGYC	2 cut(s)	384, 1016
BstC8I	GCNNGC	4 cut(s)	25, 172, 397, 409
BstDEI	CTNAG	1 cut(s)	183
BstF5I	GGATG	1 cut(s)	583
BstFNI	CGCG	1 cut(s)	23
BstHHI	GCGC	2 cut(s)	23, 641
BstKTI	GATC	4 cut(s)	336, 528, 815, 928
BstMAI	GTCTC	1 cut(s)	651
BstMBI	GATC	4 cut(s)	333, 525, 812, 925
BstMWI	GCNNNNNNNGC	2 cut(s)	188, 392
BstNI	CCWGG	2 cut(s)	723, 847
BstNSI	RCATGY	1 cut(s)	174
BstSCI	CCNGG	4 cut(s)	679, 721, 770, 845
BstSFI	CTRYAG	1 cut(s)	231
BstSLI	GKGCMC	1 cut(s)	686
BstUI	CGCG	1 cut(s)	23
BstV1I	GCAGC	9 cut(s)	92, 176, 179, 186, 217, 416, 521, 1062, 1161
BstX2I	RGATCY	1 cut(s)	333
BstXI	CCANNNNNNTGG	1 cut(s)	971
BstYI	RGATCY	1 cut(s)	333
Bsu15I	ATCGAT	1 cut(s)	924
BsuI	GTATCC	1 cut(s)	505
BsuRI	GGCC	4 cut(s)	246, 720, 845, 850
BsuTUI	ATCGAT	1 cut(s)	924
BtsCI	GGATG	1 cut(s)	583
BtsI	GCAGTG	4 cut(s)	16, 240, 765, 1041
BtsIMutI	CAGTG	7 cut(s)	16, 240, 591, 633, 765, 807, 1041
Cac8I	GCNNGC	4 cut(s)	25, 172, 397, 409
CciI	TCATGA	2 cut(s)	51, 891
CfoI	GCGC	2 cut(s)	23, 641
Cfr13I	GGNCC	7 cut(s)	245, 550, 677, 719, 775, 843, 849
ClaI	ATCGAT	1 cut(s)	924
CseI	GACGC	1 cut(s)	392
Csp6I	GTAC	3 cut(s)	199, 375, 827
CviQI	GTAC	3 cut(s)	199, 375, 827
DdeI	CTNAG	1 cut(s)	183
DpnI	GATC	4 cut(s)	335, 527, 814, 927
DpnII	GATC	4 cut(s)	333, 525, 812, 925
Eam1104I	CTCTTC	2 cut(s)	50, 884
EarI	CTCTTC	2 cut(s)	50, 884
EciI	GGCGGA	1 cut(s)	1043
Ecl136II	GAGCTC	1 cut(s)	615
Eco130I	CCWWGG	1 cut(s)	387
Eco24I	GRGCYC	2 cut(s)	313, 617
Eco32I	GATATC	1 cut(s)	57
Eco47I	GGWCC	3 cut(s)	550, 677, 775
Eco53kI	GAGCTC	1 cut(s)	615
EcoICRI	GAGCTC	1 cut(s)	615
EcoO109I	RGGNCCY	1 cut(s)	245
EcoRII	CCWGG	2 cut(s)	721, 845
EcoRV	GATATC	1 cut(s)	57
EcoT14I	CCWWGG	1 cut(s)	387
EcoT38I	GRGCYC	2 cut(s)	313, 617
ErhI	CCWWGG	1 cut(s)	387
Esp3I	CGTCTC	1 cut(s)	651
FaqI	GGGAC	1 cut(s)	1027
FbaI	TGATCA	1 cut(s)	525
FokI	GGATG	1 cut(s)	590
FriOI	GRGCYC	2 cut(s)	313, 617
FspBI	CTAG	2 cut(s)	444, 749
GlaI	GCGC	2 cut(s)	22, 640
GsaI	CCCAGC	1 cut(s)	855
HaeIII	GGCC	4 cut(s)	246, 720, 845, 850
HapII	CCGG	7 cut(s)	324, 420, 575, 654, 680, 771, 1155
HgaI	GACGC	1 cut(s)	392
HhaI	GCGC	2 cut(s)	23, 641
Hin1I	GRCGYC	2 cut(s)	384, 1016
Hin6I	GCGC	2 cut(s)	21, 639
HinP1I	GCGC	2 cut(s)	21, 639
HincII	GTYRAC	1 cut(s)	792
HindII	GTYRAC	1 cut(s)	792
HindIII	AAGCTT	1 cut(s)	1094
HinfI	GANTC	1 cut(s)	134
HpaII	CCGG	7 cut(s)	324, 420, 575, 654, 680, 771, 1155
Hpy166II	GTNNAC	3 cut(s)	377, 763, 792
Hpy188I	TCNGA	7 cut(s)	186, 242, 273, 554, 612, 817, 930
Hpy188III	TCNNGA	7 cut(s)	52, 154, 420, 575, 778, 883, 892
Hpy8I	GTNNAC	3 cut(s)	377, 763, 792
Hpy99I	CGWCG	2 cut(s)	386, 1021
HpyAV	CCTTC	2 cut(s)	207, 944
HpyCH4III	ACNGT	2 cut(s)	506, 1114
HpyCH4IV	ACGT	8 cut(s)	201, 267, 455, 474, 558, 788, 903, 1016
HpyF10VI	GCNNNNNNNGC	2 cut(s)	188, 392
HpyF3I	CTNAG	1 cut(s)	183
HpySE526I	ACGT	8 cut(s)	201, 267, 455, 474, 558, 788, 903, 1016
Hsp92I	GRCGYC	2 cut(s)	384, 1016
HspAI	GCGC	2 cut(s)	21, 639
Kpn2I	TCCGGA	2 cut(s)	419, 574
Ksp22I	TGATCA	1 cut(s)	525
Kzo9I	GATC	4 cut(s)	333, 525, 812, 925
LmnI	GCTCC	3 cut(s)	392, 440, 577
Lsp1109I	GCAGC	9 cut(s)	92, 176, 179, 186, 217, 416, 521, 1062, 1161
MaeI	CTAG	2 cut(s)	444, 749
MaeII	ACGT	8 cut(s)	201, 267, 455, 474, 558, 788, 903, 1016
MaeIII	GTNAC	6 cut(s)	625, 704, 784, 865, 991, 1036
MalI	GATC	4 cut(s)	335, 527, 814, 927
MboI	GATC	4 cut(s)	333, 525, 812, 925
MboII	GAAGA	5 cut(s)	37, 40, 871, 991, 1116
MfeI	CAATTG	2 cut(s)	460, 672
MflI	RGATCY	1 cut(s)	333
MhlI	GDGCHC	4 cut(s)	313, 617, 686, 1164
MluCI	AATT	3 cut(s)	261, 460, 672
MlyI	GAGTC	1 cut(s)	128
MmeI	TCCRAC	1 cut(s)	418
MnlI	CCTC	5 cut(s)	236, 704, 891, 1024, 1064
MroI	TCCGGA	2 cut(s)	419, 574
MseI	TTAA	3 cut(s)	264, 345, 561
MslI	CAYNNNNRTG	3 cut(s)	893, 1126, 1157
MspA1I	CMGCKG	1 cut(s)	534
MspI	CCGG	7 cut(s)	324, 420, 575, 654, 680, 771, 1155
MspR9I	CCNGG	4 cut(s)	681, 723, 772, 847
MunI	CAATTG	2 cut(s)	460, 672
Mva1269I	GAATGC	3 cut(s)	82, 600, 802
MvaI	CCWGG	2 cut(s)	723, 847
MvnI	CGCG	1 cut(s)	23
MwoI	GCNNNNNNNGC	2 cut(s)	188, 392
NciI	CCSGG	2 cut(s)	681, 772
NdeII	GATC	4 cut(s)	333, 525, 812, 925
NlaIV	GGNNCC	3 cut(s)	283, 685, 776
NmuCI	GTSAC	4 cut(s)	784, 865, 991, 1036
NspI	RCATGY	1 cut(s)	174
OliI	CACNNNNGTG	1 cut(s)	1157
PaeI	GCATGC	1 cut(s)	174
PagI	TCATGA	2 cut(s)	51, 891
PcsI	WCGNNNNNNNCGW	1 cut(s)	762
PctI	GAATGC	3 cut(s)	82, 600, 802
PflMI	CCANNNNNTGG	1 cut(s)	728
PleI	GAGTC	1 cut(s)	128
PpsI	GAGTC	1 cut(s)	128
PsiI	TTATAA	1 cut(s)	93
Psp124BI	GAGCTC	1 cut(s)	617
Psp1406I	AACGTT	4 cut(s)	267, 455, 558, 903
Psp6I	CCWGG	2 cut(s)	721, 845
PspFI	CCCAGC	1 cut(s)	851
PspGI	CCWGG	2 cut(s)	721, 845
PspN4I	GGNNCC	3 cut(s)	283, 685, 776
PspPI	GGNCC	7 cut(s)	245, 550, 677, 719, 775, 843, 849
PstI	CTGCAG	1 cut(s)	235
PsuI	RGATCY	1 cut(s)	333
PvuII	CAGCTG	1 cut(s)	534
RsaI	GTAC	3 cut(s)	200, 376, 828
RsaNI	GTAC	3 cut(s)	199, 375, 827
RseI	CAYNNNNRTG	3 cut(s)	893, 1126, 1157
SacI	GAGCTC	1 cut(s)	617
SaqAI	TTAA	3 cut(s)	264, 345, 561
Sau3AI	GATC	4 cut(s)	333, 525, 812, 925
Sau96I	GGNCC	7 cut(s)	245, 550, 677, 719, 775, 843, 849
SchI	GAGTC	1 cut(s)	128
ScrFI	CCNGG	4 cut(s)	681, 723, 772, 847
SduI	GDGCHC	4 cut(s)	313, 617, 686, 1164
SfcI	CTRYAG	1 cut(s)	231
SinI	GGWCC	3 cut(s)	550, 677, 775
SmiMI	CAYNNNNRTG	3 cut(s)	893, 1126, 1157
SphI	GCATGC	1 cut(s)	174
Sse9I	AATT	3 cut(s)	261, 460, 672
SsiI	CCGC	2 cut(s)	717, 1028
SspMI	CTAG	2 cut(s)	444, 749
SstI	GAGCTC	1 cut(s)	617
StyD4I	CCNGG	4 cut(s)	679, 721, 770, 845
StyI	CCWWGG	1 cut(s)	387
TaaI	ACNGT	2 cut(s)	506, 1114
TaiI	ACGT	8 cut(s)	204, 270, 458, 477, 561, 791, 906, 1019
TaqI	TCGA	4 cut(s)	74, 381, 449, 924
TasI	AATT	3 cut(s)	261, 460, 672
TauI	GCSGC	1 cut(s)	720
Tru1I	TTAA	3 cut(s)	264, 345, 561
Tru9I	TTAA	3 cut(s)	264, 345, 561
TscAI	CASTG	7 cut(s)	23, 240, 598, 640, 765, 814, 1041
TseFI	GTSAC	4 cut(s)	784, 865, 991, 1036
TseI	GCWGC	9 cut(s)	80, 164, 167, 174, 230, 429, 534, 1050, 1149
Tsp45I	GTSAC	4 cut(s)	784, 865, 991, 1036
TspDTI	ATGAA	6 cut(s)	40, 116, 331, 593, 1116, 1121
TspGWI	ACGGA	2 cut(s)	294, 1053
TspRI	CASTG	7 cut(s)	23, 240, 598, 640, 765, 814, 1041
Van91I	CCANNNNNTGG	1 cut(s)	728
VpaK11BI	GGWCC	3 cut(s)	550, 677, 775
XceI	RCATGY	1 cut(s)	174
XspI	CTAG	2 cut(s)	444, 749
ZraI	GACGTC	1 cut(s)	1017

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