Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0002146

Physical Location & Seq

Genomic Coordinates Forward (+)

7642858 .. 7647134

Gene Structure 4277 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000006489

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1164 bp

ATGGTCTCGACCTTGGCTATCCAATGTGTTTGCTTAGTGCTATTGCTTGTTATAACCATTAACAAAGTTCAAGCTCAGTCCAAAGTTTACAATGTACTGGAACACGGGGCCGTTGCAGATGGAAAATTTGATAACAGCAAGGTCTTGAGTGAAGTGTGGAACCAATCCTGTCATCAAAACACTGGAGGTGGTGTTATTTTATTTCCACAAGGGACGTTCATGGTGGCTCCGGTGGTTCTACAAGGGCATTGCAAGGGACCAATGGAGTTGCAGGTACAGGGAACCCTACAAGCTCCCGTGGACGTCCAATCTTCGGTTGGTGTGGACCATTGGATCAGCTTCAGATATGTTGAACACTTCGTAATTCATGGTGGTGGATTGTTGGACGGCCAAGGAGCCTCTGCTTGGGGAAAGAGCAAGGCACTTCCCACTACATTGAGGTTAGATTTTGTTTCTCATTCAAGCATCCGCCAAATAACATTTCTCAACAGCAAGAACACCCACATCAAAATTTTCACATGCAGTGTTGTAGTAATTAGCAACATCAACATATCGGCTCCTGGTGACAGTCCCAACACTGACGGAATCAAAGTAAGTAATTCCAAATACATCCAAATCTTGGATTCAGTGATATCCGTAGGGGACGACTGCATAGCCTGCCTTCCCAATTCAAAGAACATCAACATAACTAGAGTTCACTGTGGACCTGGACATGGATTTAGCATCGGAAGCATTTCTCGTGGTACTGTTACTAATTTGAACGTAAGAAACAGCAGTTTAGTTGGTACTCAGAATGGAGTGAGAATCAAGACAAAGGCTTATCCATCTCAGCCAGGCAACGTTACATATGTTACATTTGAGCACATAGAAATGGATAATGTCCGCAACCCCATCATCATTGATCAAAACTATTGCCCTGATCACGGATGTAGCGGAAAGGAATCCTCACAAGTTCAGATTAAAAATGTTAAGTTTAATAACATTTGGGGAACTTCAAGAACAAAGACTGCAGTTAATTTCAACTGCAGCCAAAGTAAACCTTGCCATGAGATTGAGCTGAGAGACATCAACCTATATTATAGAGATGGAGGACCTGCGAATTCGTCATGTTCGCATGTGGATGGCAAAGCTTATGGCAAACAAAACCCTCCTTCTTGCCTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

388

Amino Acids

41.89

Weight (kDa)

8.59

Isoelectric Point (pI)

42.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	30 - 257	4.1e-08	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	66 - 374	1.1e-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

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

Orthologous Genes (Group: OG0002146)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g12491 FvH4_1g12500 FvH4_3g23740 FvH4_4g28770
malus_domestica	MD03G1196500.v1.1 MD11G1207000.v1.1
prunus_persica	Prupe.4G218900_v2.0.a1 Prupe.4G228600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0100401 RchiOBHm_Chr4g0436881 RchiOBHm_Chr5g0041901 RchiOBHm_Chr5g0041941
rosa_laevigata	RLG00000006489 RLG00000016970 RLG00000016994 RLG00000034104
rosa_multiflora	Rmu_sc0001095.1_g000011 Rmu_sc0001464.1_g000018 Rmu_sc0009443.1_g000011 Rmu_sc0010997.1_g000006
rosa_roxburghii	Rroxscaffold_2G00142280 Rroxscaffold_5G00377950
rosa_rugosa	Rorug02G0087800 Rorug04G0297000 Rorug05G0197100
rosa_samantha	Rh2AG137300 Rh2AG137500 Rh2BG140500 Rh2BG140700 Rh2CG142600 Rh2DG142500 Rh4AG351300 Rh4BG360300 Rh4CG374600 Rh4DG354600 Rh5AG281700 Rh5AG281900 Rh5BG287500 Rh5CG318800 Rh5DG296100 Rh5DG296400
rosa_wichuraiana	Rw0G001350 Rw2G010740 Rw4G030760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	53
AatII	GACGTC	1 cut(s)	306
Acc36I	ACCTGC	2 cut(s)	262, 1102
AccB7I	CCANNNNNTGG	1 cut(s)	619
AciI	CCGC	3 cut(s)	469, 883, 933
AclI	AACGTT	1 cut(s)	840
AclWI	GGATC	1 cut(s)	341
AcoI	YGGCCR	1 cut(s)	388
AcsI	RAATTY	3 cut(s)	125, 510, 1099
AcuI	CTGAAG	1 cut(s)	325
AcyI	GRCGYC	1 cut(s)	303
AfaI	GTAC	4 cut(s)	96, 276, 745, 787
AfiI	CCNNNNNNNGG	5 cut(s)	313, 405, 619, 713, 923
AgsI	TTSAA	7 cut(s)	71, 353, 462, 672, 760, 996, 1021
AjnI	CCWGG	3 cut(s)	559, 706, 832
AjuI	GAANNNNNNNTTGG	2 cut(s)	465, 497
AluBI	AGCT	5 cut(s)	74, 293, 339, 1057, 1130
AluI	AGCT	5 cut(s)	74, 293, 339, 1057, 1130
Alw21I	GWGCWC	1 cut(s)	864
Alw26I	GTCTC	2 cut(s)	10, 1056
AlwI	GGATC	1 cut(s)	341
AoxI	GGCC	2 cut(s)	108, 388
ApeKI	GCWGC	1 cut(s)	1026
ApoI	RAATTY	3 cut(s)	125, 510, 1099
Asp700I	GAANNNNTTC	1 cut(s)	733
AspS9I	GGNCC	5 cut(s)	108, 257, 325, 704, 1091
AsuHPI	GGTGA	1 cut(s)	575
AvaII	GGWCC	4 cut(s)	257, 325, 704, 1091
BauI	CACGAG	1 cut(s)	738
Bbv12I	GWGCWC	1 cut(s)	864
BbvI	GCAGC	1 cut(s)	1038
BccI	CCATC	5 cut(s)	113, 832, 899, 1079, 1115
BceAI	ACGGC	2 cut(s)	95, 403
BciT130I	CCWGG	3 cut(s)	561, 708, 834
BclI	TGATCA	2 cut(s)	901, 919
BcoDI	GTCTC	2 cut(s)	10, 1056
BfaI	CTAG	1 cut(s)	690
BfmI	CTRYAG	2 cut(s)	1008, 1024
BfuAI	ACCTGC	2 cut(s)	262, 1102
BisI	GCNGC	1 cut(s)	1027
BlsI	GCNGC	1 cut(s)	1028
Bme1390I	CCNGG	3 cut(s)	561, 708, 834
Bme18I	GGWCC	4 cut(s)	257, 325, 704, 1091
BmgT120I	GGNCC	5 cut(s)	108, 257, 325, 704, 1091
BmiI	GGNNCC	7 cut(s)	109, 161, 228, 258, 283, 397, 558
BmrFI	CCNGG	3 cut(s)	561, 708, 834
BmsI	GCATC	2 cut(s)	474, 732
BpmI	CTGGAG	1 cut(s)	204
BpuEI	CTTGAG	1 cut(s)	166
BsaHI	GRCGYC	1 cut(s)	303
BsaI	GGTCTC	1 cut(s)	10
BsaJI	CCNNGG	3 cut(s)	12, 297, 391
BsaWI	WCCGGW	1 cut(s)	229
BsaXI	ACNNNNNCTCC	2 cut(s)	177, 207
Bsc4I	CCNNNNNNNGG	5 cut(s)	313, 405, 619, 713, 923
Bse1I	ACTGG	2 cut(s)	102, 187
Bse3DI	GCAATG	1 cut(s)	247
BseBI	CCWGG	3 cut(s)	561, 708, 834
BseDI	CCNNGG	3 cut(s)	12, 297, 391
BseGI	GGATG	4 cut(s)	465, 609, 932, 1126
BseLI	CCNNNNNNNGG	5 cut(s)	313, 405, 619, 713, 923
BseMI	GCAATG	1 cut(s)	247
BseMII	CTCAG	4 cut(s)	89, 803, 842, 1049
BseNI	ACTGG	2 cut(s)	102, 187
BseXI	GCAGC	1 cut(s)	1038
BshFI	GGCC	2 cut(s)	110, 390
BsiHKAI	GWGCWC	1 cut(s)	864
BsiSI	CCGG	1 cut(s)	230
BslFI	GGGAC	4 cut(s)	226, 270, 555, 656
BslI	CCNNNNNNNGG	5 cut(s)	313, 405, 619, 713, 923
BsmAI	GTCTC	2 cut(s)	10, 1056
BsmFI	GGGAC	4 cut(s)	226, 270, 555, 656
BsnI	GGCC	2 cut(s)	110, 390
Bso31I	GGTCTC	1 cut(s)	10
Bsp1286I	GDGCHC	1 cut(s)	864
Bsp143I	GATC	3 cut(s)	333, 901, 919
BspACI	CCGC	3 cut(s)	469, 883, 933
BspANI	GGCC	2 cut(s)	110, 390
BspCNI	CTCAG	4 cut(s)	88, 802, 841, 1050
BspLI	GGNNCC	7 cut(s)	109, 161, 228, 258, 283, 397, 558
BspMAI	CTGCAG	2 cut(s)	1012, 1028
BspMI	ACCTGC	2 cut(s)	262, 1102
BspPI	GGATC	1 cut(s)	341
BspTNI	GGTCTC	1 cut(s)	10
BsrDI	GCAATG	1 cut(s)	247
BsrI	ACTGG	2 cut(s)	102, 187
BssECI	CCNNGG	3 cut(s)	12, 297, 391
BssMI	GATC	3 cut(s)	333, 901, 919
BssNI	GRCGYC	1 cut(s)	303
BssSI	CACGAG	1 cut(s)	738
BssT1I	CCWWGG	2 cut(s)	12, 391
Bst2BI	CACGAG	1 cut(s)	738
Bst2UI	CCWGG	3 cut(s)	561, 708, 834
Bst4CI	ACNGT	3 cut(s)	569, 701, 748
BstACI	GRCGYC	1 cut(s)	303
BstAPI	GCANNNNNTGC	1 cut(s)	657
BstC8I	GCNNGC	1 cut(s)	658
BstDEI	CTNAG	5 cut(s)	34, 75, 789, 828, 1058
BstDSI	CCRYGG	1 cut(s)	297
BstF5I	GGATG	4 cut(s)	465, 609, 932, 1126
BstKTI	GATC	3 cut(s)	336, 904, 922
BstMAI	GTCTC	2 cut(s)	10, 1056
BstMBI	GATC	3 cut(s)	333, 901, 919
BstMWI	GCNNNNNNNGC	2 cut(s)	657, 729
BstNI	CCWGG	3 cut(s)	561, 708, 834
BstNSI	RCATGY	2 cut(s)	522, 1118
BstSCI	CCNGG	3 cut(s)	559, 706, 832
BstSFI	CTRYAG	2 cut(s)	1008, 1024
BstV1I	GCAGC	1 cut(s)	1038
BsuRI	GGCC	2 cut(s)	110, 390
BtgI	CCRYGG	1 cut(s)	297
BtsCI	GGATG	4 cut(s)	465, 609, 932, 1126
BtsI	GCAGTG	1 cut(s)	529
BtsIMutI	CAGTG	5 cut(s)	180, 529, 576, 633, 697
BveI	ACCTGC	2 cut(s)	262, 1102
Cac8I	GCNNGC	1 cut(s)	658
Cfr13I	GGNCC	5 cut(s)	108, 257, 325, 704, 1091
Csp6I	GTAC	4 cut(s)	95, 275, 744, 786
CviAII	CATG	7 cut(s)	220, 368, 519, 713, 1046, 1107, 1115
CviQI	GTAC	4 cut(s)	95, 275, 744, 786
DdeI	CTNAG	5 cut(s)	34, 75, 789, 828, 1058
DpnI	GATC	3 cut(s)	335, 903, 921
DpnII	GATC	3 cut(s)	333, 901, 919
EaeI	YGGCCR	1 cut(s)	388
EciI	GGCGGA	1 cut(s)	458
Eco130I	CCWWGG	2 cut(s)	12, 391
Eco31I	GGTCTC	1 cut(s)	10
Eco32I	GATATC	1 cut(s)	633
Eco47I	GGWCC	4 cut(s)	257, 325, 704, 1091
Eco57I	CTGAAG	1 cut(s)	325
EcoO109I	RGGNCCY	1 cut(s)	1091
EcoRI	GAATTC	1 cut(s)	1099
EcoRII	CCWGG	3 cut(s)	559, 706, 832
EcoRV	GATATC	1 cut(s)	633
EcoT14I	CCWWGG	2 cut(s)	12, 391
ErhI	CCWWGG	2 cut(s)	12, 391
FaeI	CATG	7 cut(s)	223, 371, 522, 716, 1049, 1110, 1118
FalI	AAGNNNNNCTT	2 cut(s)	1024, 1056
FaqI	GGGAC	4 cut(s)	226, 270, 555, 656
FatI	CATG	7 cut(s)	219, 367, 518, 712, 1045, 1106, 1114
FauNDI	CATATG	1 cut(s)	847
FbaI	TGATCA	2 cut(s)	901, 919
Fnu4HI	GCNGC	1 cut(s)	1027
FokI	GGATG	4 cut(s)	452, 596, 939, 1133
Fsp4HI	GCNGC	1 cut(s)	1027
FspBI	CTAG	1 cut(s)	690
GluI	GCNGC	1 cut(s)	1027
GsuI	CTGGAG	1 cut(s)	204
HaeIII	GGCC	2 cut(s)	110, 390
HapII	CCGG	1 cut(s)	230
Hin1I	GRCGYC	1 cut(s)	303
Hin1II	CATG	7 cut(s)	223, 371, 522, 716, 1049, 1110, 1118
HindIII	AAGCTT	1 cut(s)	1128
HinfI	GANTC	4 cut(s)	585, 623, 804, 941
HpaII	CCGG	1 cut(s)	230
HphI	GGTGA	1 cut(s)	575
Hpy166II	GTNNAC	6 cut(s)	88, 301, 325, 697, 704, 1037
Hpy188I	TCNGA	4 cut(s)	344, 728, 792, 957
Hpy188III	TCNNGA	4 cut(s)	7, 145, 808, 996
Hpy8I	GTNNAC	6 cut(s)	88, 301, 325, 697, 704, 1037
HpyAV	CCTTC	2 cut(s)	671, 1161
HpyCH4III	ACNGT	3 cut(s)	569, 701, 748
HpyCH4IV	ACGT	4 cut(s)	215, 303, 762, 840
HpyCH4V	TGCA	7 cut(s)	116, 252, 271, 522, 651, 1010, 1026
HpyF10VI	GCNNNNNNNGC	2 cut(s)	657, 729
HpyF3I	CTNAG	5 cut(s)	34, 75, 789, 828, 1058
HpySE526I	ACGT	4 cut(s)	215, 303, 762, 840
Hsp92I	GRCGYC	1 cut(s)	303
Hsp92II	CATG	7 cut(s)	223, 371, 522, 716, 1049, 1110, 1118
Ksp22I	TGATCA	2 cut(s)	901, 919
Kzo9I	GATC	3 cut(s)	333, 901, 919
LmnI	GCTCC	4 cut(s)	232, 298, 395, 562
Lsp1109I	GCAGC	1 cut(s)	1038
LweI	GCATC	2 cut(s)	474, 732
MaeI	CTAG	1 cut(s)	690
MaeII	ACGT	4 cut(s)	215, 303, 762, 840
MaeIII	GTNAC	4 cut(s)	563, 748, 841, 850
MalI	GATC	3 cut(s)	335, 903, 921
MboI	GATC	3 cut(s)	333, 901, 919
MboII	GAAGA	1 cut(s)	303
MhlI	GDGCHC	1 cut(s)	864
MluCI	AATT	9 cut(s)	125, 363, 510, 534, 598, 667, 754, 1015, 1099
MmeI	TCCRAC	1 cut(s)	363
MnlI	CCTC	6 cut(s)	179, 409, 432, 955, 1082, 1158
MroXI	GAANNNNTTC	1 cut(s)	733
MseI	TTAA	5 cut(s)	60, 960, 969, 975, 1014
MslI	CAYNNNNRTG	3 cut(s)	372, 869, 1119
MspI	CCGG	1 cut(s)	230
MspR9I	CCNGG	3 cut(s)	561, 708, 834
MvaI	CCWGG	3 cut(s)	561, 708, 834
MwoI	GCNNNNNNNGC	2 cut(s)	657, 729
NdeI	CATATG	1 cut(s)	847
NdeII	GATC	3 cut(s)	333, 901, 919
NlaIII	CATG	7 cut(s)	223, 371, 522, 716, 1049, 1110, 1118
NlaIV	GGNNCC	7 cut(s)	109, 161, 228, 258, 283, 397, 558
NmuCI	GTSAC	1 cut(s)	563
NspI	RCATGY	2 cut(s)	522, 1118
PdmI	GAANNNNTTC	1 cut(s)	733
PfeI	GAWTC	4 cut(s)	585, 623, 804, 941
PflMI	CCANNNNNTGG	1 cut(s)	619
PkrI	GCNGC	1 cut(s)	1028
PpuMI	RGGWCCY	1 cut(s)	1091
PsiI	TTATAA	1 cut(s)	53
Psp1406I	AACGTT	1 cut(s)	840
Psp5II	RGGWCCY	1 cut(s)	1091
Psp6I	CCWGG	3 cut(s)	559, 706, 832
PspGI	CCWGG	3 cut(s)	559, 706, 832
PspN4I	GGNNCC	7 cut(s)	109, 161, 228, 258, 283, 397, 558
PspPI	GGNCC	5 cut(s)	108, 257, 325, 704, 1091
PspPPI	RGGWCCY	1 cut(s)	1091
PstI	CTGCAG	2 cut(s)	1012, 1028
RsaI	GTAC	4 cut(s)	96, 276, 745, 787
RsaNI	GTAC	4 cut(s)	95, 275, 744, 786
RseI	CAYNNNNRTG	3 cut(s)	372, 869, 1119
SaqAI	TTAA	5 cut(s)	60, 960, 969, 975, 1014
SatI	GCNGC	1 cut(s)	1027
Sau3AI	GATC	3 cut(s)	333, 901, 919
Sau96I	GGNCC	5 cut(s)	108, 257, 325, 704, 1091
ScrFI	CCNGG	3 cut(s)	561, 708, 834
SduI	GDGCHC	1 cut(s)	864
SfaNI	GCATC	2 cut(s)	474, 732
SfcI	CTRYAG	2 cut(s)	1008, 1024
SinI	GGWCC	4 cut(s)	257, 325, 704, 1091
SmiMI	CAYNNNNRTG	3 cut(s)	372, 869, 1119
SmlI	CTYRAG	1 cut(s)	145
SmoI	CTYRAG	1 cut(s)	145
Sse9I	AATT	9 cut(s)	125, 363, 510, 534, 598, 667, 754, 1015, 1099
SsiI	CCGC	3 cut(s)	469, 883, 933
SspMI	CTAG	1 cut(s)	690
StyD4I	CCNGG	3 cut(s)	559, 706, 832
StyI	CCWWGG	2 cut(s)	12, 391
TaaI	ACNGT	3 cut(s)	569, 701, 748
TaiI	ACGT	4 cut(s)	218, 306, 765, 843
TaqI	TCGA	1 cut(s)	8
TasI	AATT	9 cut(s)	125, 363, 510, 534, 598, 667, 754, 1015, 1099
TatI	WGTACW	1 cut(s)	94
TfiI	GAWTC	4 cut(s)	585, 623, 804, 941
Tru1I	TTAA	5 cut(s)	60, 960, 969, 975, 1014
Tru9I	TTAA	5 cut(s)	60, 960, 969, 975, 1014
TscAI	CASTG	5 cut(s)	187, 529, 583, 633, 704
TseFI	GTSAC	1 cut(s)	563
TseI	GCWGC	1 cut(s)	1026
Tsp45I	GTSAC	1 cut(s)	563
TspDTI	ATGAA	2 cut(s)	208, 356
TspGWI	ACGGA	3 cut(s)	597, 625, 939
TspRI	CASTG	5 cut(s)	187, 529, 583, 633, 704
Van91I	CCANNNNNTGG	1 cut(s)	619
VpaK11BI	GGWCC	4 cut(s)	257, 325, 704, 1091
XapI	RAATTY	3 cut(s)	125, 510, 1099
XceI	RCATGY	2 cut(s)	522, 1118
XcmI	CCANNNNNNNNNTGG	1 cut(s)	314
XmnI	GAANNNNTTC	1 cut(s)	733
XspI	CTAG	1 cut(s)	690
ZraI	GACGTC	1 cut(s)	304

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