Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0008415

Physical Location & Seq

Genomic Coordinates Forward (+)

33594456 .. 33595769

Gene Structure 1314 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002406

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1149 bp

ATGGCTTCTCAATACTGCTTTGTTTTGGTTAATGTCATCATTCTCCTCTGCAGCTTGGGTCCGAACCAGAGTTTGGCAAAGGAAACAAAAGTCCATGGCTTGAAAATGAACGTAATTGATGGTTGCTGGAGATGGAATCCAAATTGGAGAAGCAACCGCCAGCAACTCGCAATGTGTTCGGTAGGATTTGCCGGGAAAATGAGCAACAACATAGGAAAAGATGTCATAAACTATGAAGTAACAGATCCCAGTGACAATGCATTAAATCCCCAACCAGGTACTTTGAGATATGGAGCTACTATGATCAAAGGCAAAAAATGGATCACATTCCAGAGGGACATGAAAATTAAACTCGAGAAACCATTGCTCGTTAGTAGCTTCACTGCAATTGATGGAAGAGGTGCTAATGTCCACATAAAAGGTAACGCGTGCTTGAGAGTGTTCAAAGCAACCAATGTTATCATACATGGCCTTCGAATCCACCACTGCAAGTCGCAGCCACCGACCACGGTTATGGGTCCGAATGGAATAGTTTCACTAGGAGCGGTTGATGGAGACGCAATAAGGTTGGTTACTGCATCAAAGGTTTGGATAGACCACAATACACTATACGAGTGTGAGGATGGTCTTCTCGACGTCACTCGTGGATCAACCAATGTCACCGTCTCCAACAATTGGTTCAGAAACCAGGACAAGGTAATGCTTCTCGGCCATGATGATGGCTTCTTTCGGGACAAGAACATGAAGGTGACTGTAGTGTACAATCATTTTGGACCACTCTGCAATCAAAGAATGCCAAGGATTCGCCATGGATATGCACATGTCGTTAACAACTTGTACAGGGAATGGACACAGTATGCCATTGGGGGAAGCATGAACCCTAGTGTTAAAAGCGAAGCCAACCTCTTCATTGCACCAAAACAAAACAAAGAGGTCACTTGGAAGCAGGACAGTGTTAACAACTCCGGGAAATTTTACTCCAAAGGCGATATTTTTGAAAATGGGGCTTCTTTCATCCAAACAGGTCAAGGTGGAGCCCCGCCACACTATAACATGGAACAAAATTTCCGAGTTGCCGATGCCAAATCTGTCCGGTCATTGACAAGGTCATCAGGTGCTCTAACATGCACCAAACAATCTAGATGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00040 ko02024 map00040 map02024

Pfam Domains

Protein Families

Pec_lyase_C

Protein Analysis

383

Amino Acids

42.57

Weight (kDa)

9.54

Isoelectric Point (pI)

31.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pectate_lyase_4	PF00544	123 - 320	1.9e-27	Pectate lyase
Beta_helix	PF13229	145 - 256	5.2e-06	Right handed beta helix region

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0008415)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09280
fragaria_vesca	FvH4_5g27090
malus_domestica	MD06G1000300.v1.1 MD06G1241300.v1.1
prunus_persica	Prupe.1G565000_v2.0.a1 Prupe.1G565500_v2.0.a1 Prupe.1G565700_v2.0.a1 Prupe.1G565800_v2.0.a1 Prupe.5G245600_v2.0.a1
pyrus_communis	pycom06g00070 pycom06g00080
rosa_chinensis	RchiOBHm_Chr7g0218091
rosa_laevigata	RLG00000002406 RLG00000008303
rosa_multiflora	Rmu_sc0000379.1_g000019
rosa_roxburghii	Rroxscaffold_3G00241330 Rroxscaffold_5G00356480
rosa_rugosa	Rorug04G0104700 Rorug07G0173900
rosa_samantha	Rh7AG316300 Rh7BG306500 Rh7DG315200
rosa_wichuraiana	Rw7G026780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	639
AccB7I	CCANNNNNTGG	2 cut(s)	73, 675
AccBSI	CCGCTC	1 cut(s)	545
AccII	CGCG	1 cut(s)	428
AciI	CCGC	3 cut(s)	157, 545, 1040
AclWI	GGATC	3 cut(s)	239, 329, 655
AcoI	YGGCCR	1 cut(s)	709
AcsI	RAATTY	2 cut(s)	971, 1063
AcyI	GRCGYC	1 cut(s)	636
AfaI	GTAC	3 cut(s)	280, 761, 839
AfiI	CCNNNNNNNGG	4 cut(s)	73, 275, 675, 694
AflIII	ACRYGT	2 cut(s)	426, 820
AgsI	TTSAA	3 cut(s)	103, 445, 998
AjnI	CCWGG	2 cut(s)	274, 687
AjuI	GAANNNNNNNTTGG	4 cut(s)	56, 88, 662, 694
AloI	GAACNNNNNNTCC	2 cut(s)	1050, 1082
AluBI	AGCT	3 cut(s)	54, 296, 378
AluI	AGCT	3 cut(s)	54, 296, 378
Alw21I	GWGCWC	1 cut(s)	1120
Alw26I	GTCTC	2 cut(s)	549, 670
AlwI	GGATC	3 cut(s)	239, 329, 655
Ama87I	CYCGRG	1 cut(s)	353
AoxI	GGCC	2 cut(s)	469, 709
ApeKI	GCWGC	2 cut(s)	51, 496
ApoI	RAATTY	2 cut(s)	971, 1063
Asp700I	GAANNNNTTC	1 cut(s)	532
AspS9I	GGNCC	3 cut(s)	59, 518, 773
AsuC2I	CCSGG	2 cut(s)	193, 967
AsuHPI	GGTGA	2 cut(s)	652, 760
AsuII	TTCGAA	1 cut(s)	475
AvaI	CYCGRG	1 cut(s)	353
AvaII	GGWCC	3 cut(s)	59, 518, 773
BanII	GRGCYC	1 cut(s)	1039
BauI	CACGAG	1 cut(s)	642
BbsI	GAAGAC	1 cut(s)	620
Bbv12I	GWGCWC	1 cut(s)	1120
BbvI	GCAGC	2 cut(s)	63, 508
BccI	CCATC	6 cut(s)	113, 126, 386, 545, 617, 713
BcgI	CGANNNNNNTGC	2 cut(s)	159, 193
BciT130I	CCWGG	2 cut(s)	276, 689
BclI	TGATCA	1 cut(s)	303
BcnI	CCSGG	2 cut(s)	193, 967
BcoDI	GTCTC	2 cut(s)	549, 670
BfaI	CTAG	3 cut(s)	539, 882, 1140
BfmI	CTRYAG	2 cut(s)	49, 753
BisI	GCNGC	2 cut(s)	52, 497
BlsI	GCNGC	2 cut(s)	53, 498
Bme1390I	CCNGG	4 cut(s)	193, 276, 689, 967
Bme18I	GGWCC	3 cut(s)	59, 518, 773
BmeT110I	CYCGRG	1 cut(s)	353
BmgT120I	GGNCC	3 cut(s)	59, 518, 773
BmiI	GGNNCC	3 cut(s)	60, 519, 1036
BmrFI	CCNGG	4 cut(s)	193, 276, 689, 967
BmrI	ACTGGG	1 cut(s)	243
BmsI	GCATC	3 cut(s)	587, 1069, 1133
BmuI	ACTGGG	1 cut(s)	243
BpiI	GAAGAC	1 cut(s)	620
BpmI	CTGGAG	1 cut(s)	148
Bpu14I	TTCGAA	1 cut(s)	475
BpuEI	CTTGAG	1 cut(s)	454
BpuMI	CCSGG	2 cut(s)	193, 967
BsaHI	GRCGYC	1 cut(s)	636
BsaJI	CCNNGG	4 cut(s)	94, 507, 797, 808
BsaWI	WCCGGW	1 cut(s)	1092
Bsc4I	CCNNNNNNNGG	4 cut(s)	73, 275, 675, 694
Bse1I	ACTGG	1 cut(s)	249
Bse3DI	GCAATG	3 cut(s)	177, 362, 909
BseBI	CCWGG	2 cut(s)	276, 689
BseDI	CCNNGG	4 cut(s)	94, 507, 797, 808
BseGI	GGATG	2 cut(s)	628, 1014
BseLI	CCNNNNNNNGG	4 cut(s)	73, 275, 675, 694
BseMI	GCAATG	3 cut(s)	177, 362, 909
BseNI	ACTGG	1 cut(s)	249
BseRI	GAGGAG	1 cut(s)	35
BseXI	GCAGC	2 cut(s)	63, 508
Bsh1236I	CGCG	1 cut(s)	428
BshFI	GGCC	2 cut(s)	471, 711
BsiHKAI	GWGCWC	1 cut(s)	1120
BsiHKCI	CYCGRG	1 cut(s)	353
BsiSI	CCGG	3 cut(s)	192, 966, 1093
BslFI	GGGAC	2 cut(s)	350, 746
BslI	CCNNNNNNNGG	4 cut(s)	73, 275, 675, 694
BsmAI	GTCTC	2 cut(s)	549, 670
BsmBI	CGTCTC	2 cut(s)	549, 670
BsmFI	GGGAC	2 cut(s)	350, 746
BsmI	GAATGC	1 cut(s)	798
BsnI	GGCC	2 cut(s)	471, 711
BsoBI	CYCGRG	1 cut(s)	353
Bsp119I	TTCGAA	1 cut(s)	475
Bsp1286I	GDGCHC	2 cut(s)	1039, 1120
Bsp1407I	TGTACA	2 cut(s)	759, 837
Bsp143I	GATC	4 cut(s)	244, 303, 321, 647
Bsp19I	CCATGG	2 cut(s)	94, 808
BspACI	CCGC	3 cut(s)	157, 545, 1040
BspANI	GGCC	2 cut(s)	471, 711
BspFNI	CGCG	1 cut(s)	428
BspLI	GGNNCC	3 cut(s)	60, 519, 1036
BspMAI	CTGCAG	1 cut(s)	53
BspPI	GGATC	3 cut(s)	239, 329, 655
BspT104I	TTCGAA	1 cut(s)	475
BsrBI	CCGCTC	1 cut(s)	545
BsrDI	GCAATG	3 cut(s)	177, 362, 909
BsrGI	TGTACA	2 cut(s)	759, 837
BsrI	ACTGG	1 cut(s)	249
BssECI	CCNNGG	4 cut(s)	94, 507, 797, 808
BssMI	GATC	4 cut(s)	244, 303, 321, 647
BssNI	GRCGYC	1 cut(s)	636
BssSI	CACGAG	1 cut(s)	642
BssT1I	CCWWGG	3 cut(s)	94, 797, 808
Bst2BI	CACGAG	1 cut(s)	642
Bst2UI	CCWGG	2 cut(s)	276, 689
Bst4CI	ACNGT	5 cut(s)	511, 664, 754, 855, 953
Bst6I	CTCTTC	2 cut(s)	391, 911
BstACI	GRCGYC	1 cut(s)	636
BstAUI	TGTACA	2 cut(s)	759, 837
BstBI	TTCGAA	1 cut(s)	475
BstC8I	GCNNGC	2 cut(s)	161, 430
BstDSI	CCRYGG	3 cut(s)	94, 507, 808
BstF5I	GGATG	2 cut(s)	628, 1014
BstFNI	CGCG	1 cut(s)	428
BstKTI	GATC	4 cut(s)	247, 306, 324, 650
BstMAI	GTCTC	2 cut(s)	549, 670
BstMBI	GATC	4 cut(s)	244, 303, 321, 647
BstNI	CCWGG	2 cut(s)	276, 689
BstNSI	RCATGY	2 cut(s)	824, 1128
BstSCI	CCNGG	4 cut(s)	191, 274, 687, 965
BstSFI	CTRYAG	2 cut(s)	49, 753
BstUI	CGCG	1 cut(s)	428
BstV1I	GCAGC	2 cut(s)	63, 508
BstV2I	GAAGAC	1 cut(s)	620
BstX2I	RGATCY	1 cut(s)	244
BstXI	CCANNNNNNTGG	2 cut(s)	514, 719
BstYI	RGATCY	1 cut(s)	244
BsuRI	GGCC	2 cut(s)	471, 711
BtgI	CCRYGG	3 cut(s)	94, 507, 808
BtsCI	GGATG	2 cut(s)	628, 1014
BtsI	GCAGTG	2 cut(s)	381, 484
BtsIMutI	CAGTG	4 cut(s)	256, 381, 484, 958
Cac8I	GCNNGC	2 cut(s)	161, 430
Cfr13I	GGNCC	3 cut(s)	59, 518, 773
CseI	GACGC	1 cut(s)	566
CsiI	ACCWGGT	1 cut(s)	274
Csp6I	GTAC	3 cut(s)	279, 760, 838
CviQI	GTAC	3 cut(s)	279, 760, 838
DpnI	GATC	4 cut(s)	246, 305, 323, 649
DpnII	GATC	4 cut(s)	244, 303, 321, 647
EaeI	YGGCCR	1 cut(s)	709
Eam1104I	CTCTTC	2 cut(s)	391, 911
EarI	CTCTTC	2 cut(s)	391, 911
Eco130I	CCWWGG	3 cut(s)	94, 797, 808
Eco24I	GRGCYC	1 cut(s)	1039
Eco47I	GGWCC	3 cut(s)	59, 518, 773
Eco88I	CYCGRG	1 cut(s)	353
EcoRII	CCWGG	2 cut(s)	274, 687
EcoT14I	CCWWGG	3 cut(s)	94, 797, 808
EcoT22I	ATGCAT	1 cut(s)	262
EcoT38I	GRGCYC	1 cut(s)	1039
ErhI	CCWWGG	3 cut(s)	94, 797, 808
Esp3I	CGTCTC	2 cut(s)	549, 670
FaqI	GGGAC	2 cut(s)	350, 746
FauI	CCCGC	1 cut(s)	1047
FbaI	TGATCA	1 cut(s)	303
Fnu4HI	GCNGC	2 cut(s)	52, 497
FokI	GGATG	2 cut(s)	635, 1001
FriOI	GRGCYC	1 cut(s)	1039
Fsp4HI	GCNGC	2 cut(s)	52, 497
FspBI	CTAG	3 cut(s)	539, 882, 1140
GluI	GCNGC	2 cut(s)	52, 497
GsuI	CTGGAG	1 cut(s)	148
HaeIII	GGCC	2 cut(s)	471, 711
HapII	CCGG	3 cut(s)	192, 966, 1093
HgaI	GACGC	1 cut(s)	566
Hin1I	GRCGYC	1 cut(s)	636
HincII	GTYRAC	2 cut(s)	829, 958
HindII	GTYRAC	2 cut(s)	829, 958
HinfI	GANTC	3 cut(s)	136, 477, 802
HpaI	GTTAAC	2 cut(s)	829, 958
HpaII	CCGG	3 cut(s)	192, 966, 1093
HphI	GGTGA	2 cut(s)	652, 760
Hpy166II	GTNNAC	4 cut(s)	412, 760, 829, 958
Hpy188I	TCNGA	4 cut(s)	63, 522, 683, 1070
Hpy188III	TCNNGA	5 cut(s)	331, 355, 632, 731, 1140
Hpy8I	GTNNAC	4 cut(s)	412, 760, 829, 958
Hpy99I	CGWCG	1 cut(s)	638
HpyAV	CCTTC	2 cut(s)	482, 739
HpyCH4III	ACNGT	5 cut(s)	511, 664, 754, 855, 953
HpyCH4IV	ACGT	2 cut(s)	111, 636
HpyCH4V	TGCA	9 cut(s)	51, 260, 386, 489, 578, 783, 818, 914, 1128
HpySE526I	ACGT	2 cut(s)	111, 636
Hsp92I	GRCGYC	1 cut(s)	636
Ksp22I	TGATCA	1 cut(s)	303
KspAI	GTTAAC	2 cut(s)	829, 958
Kzo9I	GATC	4 cut(s)	244, 303, 321, 647
LmnI	GCTCC	3 cut(s)	293, 542, 1034
Lsp1109I	GCAGC	2 cut(s)	63, 508
LweI	GCATC	3 cut(s)	587, 1069, 1133
MabI	ACCWGGT	1 cut(s)	274
MaeI	CTAG	3 cut(s)	539, 882, 1140
MaeII	ACGT	2 cut(s)	111, 636
MaeIII	GTNAC	8 cut(s)	238, 251, 422, 571, 637, 658, 748, 934
MalI	GATC	4 cut(s)	246, 305, 323, 649
MbiI	CCGCTC	1 cut(s)	545
MboI	GATC	4 cut(s)	244, 303, 321, 647
MboII	GAAGA	3 cut(s)	408, 620, 898
MfeI	CAATTG	2 cut(s)	387, 673
MflI	RGATCY	1 cut(s)	244
MhlI	GDGCHC	2 cut(s)	1039, 1120
MluCI	AATT	7 cut(s)	114, 142, 345, 387, 673, 971, 1063
MluI	ACGCGT	1 cut(s)	426
MmeI	TCCRAC	1 cut(s)	693
MnlI	CCTC	6 cut(s)	56, 327, 392, 613, 914, 925
Mph1103I	ATGCAT	1 cut(s)	262
MroXI	GAANNNNTTC	1 cut(s)	532
MseI	TTAA	6 cut(s)	30, 263, 348, 828, 888, 957
MslI	CAYNNNNRTG	4 cut(s)	512, 717, 746, 813
MspI	CCGG	3 cut(s)	192, 966, 1093
MspR9I	CCNGG	4 cut(s)	193, 276, 689, 967
MunI	CAATTG	2 cut(s)	387, 673
Mva1269I	GAATGC	1 cut(s)	798
MvaI	CCWGG	2 cut(s)	276, 689
MvnI	CGCG	1 cut(s)	428
NciI	CCSGG	2 cut(s)	193, 967
NcoI	CCATGG	2 cut(s)	94, 808
NdeII	GATC	4 cut(s)	244, 303, 321, 647
NlaIV	GGNNCC	3 cut(s)	60, 519, 1036
NmeAIII	GCCGAG	1 cut(s)	687
NmuCI	GTSAC	5 cut(s)	251, 637, 658, 748, 934
NsiI	ATGCAT	1 cut(s)	262
NspI	RCATGY	2 cut(s)	824, 1128
NspV	TTCGAA	1 cut(s)	475
PaeR7I	CTCGAG	1 cut(s)	353
PciI	ACATGT	1 cut(s)	820
PcsI	WCGNNNNNNNCGW	1 cut(s)	500
PctI	GAATGC	1 cut(s)	798
PdmI	GAANNNNTTC	1 cut(s)	532
PfeI	GAWTC	3 cut(s)	136, 477, 802
PflFI	GACNNNGTC	1 cut(s)	1105
PflMI	CCANNNNNTGG	2 cut(s)	73, 675
PfoI	TCCNGGA	1 cut(s)	965
PkrI	GCNGC	2 cut(s)	53, 498
PscI	ACATGT	1 cut(s)	820
Psp6I	CCWGG	2 cut(s)	274, 687
PspGI	CCWGG	2 cut(s)	274, 687
PspN4I	GGNNCC	3 cut(s)	60, 519, 1036
PspPI	GGNCC	3 cut(s)	59, 518, 773
PstI	CTGCAG	1 cut(s)	53
PsuI	RGATCY	1 cut(s)	244
PsyI	GACNNNGTC	1 cut(s)	1105
RsaI	GTAC	3 cut(s)	280, 761, 839
RsaNI	GTAC	3 cut(s)	279, 760, 838
RseI	CAYNNNNRTG	4 cut(s)	512, 717, 746, 813
SaqAI	TTAA	6 cut(s)	30, 263, 348, 828, 888, 957
SatI	GCNGC	2 cut(s)	52, 497
Sau3AI	GATC	4 cut(s)	244, 303, 321, 647
Sau96I	GGNCC	3 cut(s)	59, 518, 773
ScrFI	CCNGG	4 cut(s)	193, 276, 689, 967
SduI	GDGCHC	2 cut(s)	1039, 1120
SexAI	ACCWGGT	1 cut(s)	274
SfaNI	GCATC	3 cut(s)	587, 1069, 1133
SfcI	CTRYAG	2 cut(s)	49, 753
Sfr274I	CTCGAG	1 cut(s)	353
SfuI	TTCGAA	1 cut(s)	475
SinI	GGWCC	3 cut(s)	59, 518, 773
SlaI	CTCGAG	1 cut(s)	353
SmiMI	CAYNNNNRTG	4 cut(s)	512, 717, 746, 813
SmlI	CTYRAG	2 cut(s)	353, 433
SmoI	CTYRAG	2 cut(s)	353, 433
Sse9I	AATT	7 cut(s)	114, 142, 345, 387, 673, 971, 1063
SsiI	CCGC	3 cut(s)	157, 545, 1040
SspMI	CTAG	3 cut(s)	539, 882, 1140
StyD4I	CCNGG	4 cut(s)	191, 274, 687, 965
StyI	CCWWGG	3 cut(s)	94, 797, 808
TaaI	ACNGT	5 cut(s)	511, 664, 754, 855, 953
TaiI	ACGT	2 cut(s)	114, 639
TaqI	TCGA	3 cut(s)	354, 475, 633
TasI	AATT	7 cut(s)	114, 142, 345, 387, 673, 971, 1063
TatI	WGTACW	2 cut(s)	759, 837
TfiI	GAWTC	3 cut(s)	136, 477, 802
Tru1I	TTAA	6 cut(s)	30, 263, 348, 828, 888, 957
Tru9I	TTAA	6 cut(s)	30, 263, 348, 828, 888, 957
TscAI	CASTG	4 cut(s)	256, 388, 491, 958
TseFI	GTSAC	5 cut(s)	251, 637, 658, 748, 934
TseI	GCWGC	2 cut(s)	51, 496
Tsp45I	GTSAC	5 cut(s)	251, 637, 658, 748, 934
TspDTI	ATGAA	7 cut(s)	122, 249, 356, 758, 890, 898, 1003
TspRI	CASTG	4 cut(s)	256, 388, 491, 958
Tth111I	GACNNNGTC	1 cut(s)	1105
Van91I	CCANNNNNTGG	2 cut(s)	73, 675
VpaK11BI	GGWCC	3 cut(s)	59, 518, 773
XapI	RAATTY	2 cut(s)	971, 1063
XbaI	TCTAGA	1 cut(s)	1139
XceI	RCATGY	2 cut(s)	824, 1128
XhoI	CTCGAG	1 cut(s)	353
XmnI	GAANNNNTTC	1 cut(s)	532
XspI	CTAG	3 cut(s)	539, 882, 1140
ZraI	GACGTC	1 cut(s)	637
Zsp2I	ATGCAT	1 cut(s)	262

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