Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0006665

Physical Location & Seq

Genomic Coordinates Reverse (-)

5864111 .. 5866238

Gene Structure 2128 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000031519

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1731 bp

ATGGCATCTTCTCTGTTCATTCTCCTCCTCATCATCATCACCGCCCCCGTCGCTTCACCCCCAACCACCATCATCACCGCCCCCCCCGCTTCGCCTTCCACACCTCCTCCTCCTCTGGCCACAGCGACGGATCCATCTACCTCATGGCTTCCGCCGCCGCCGCCGCCGCCTCAGTCCAGAGCGACGGATTCTTCCACCTCAGCGGTTCCGCCGCCGCCTCCTCCGGCCACAGCGACGGATCCTTCCACCTCACGGCTTCAAAACCCAGAGACATTCGCACTCACAGAAAACATCAACCTTCTCTCTCTCATGCCCCCAAATCTGCATCCATCACCATCTCTCTGGTTCCTCCGCATCACCACCACCGTCACCGCTTCCGCCACCGCCTCACCGCTTCCGCCCCCGCCGCCGCCTCCTCCTCCAACTACCGCATCACCTCCTCCGCCACACATTCTGGGTTCCACTTTCGGGACGTGTAGCACTAAGGTCTGCTCCCCTCAGTACCCATTCACAGAATCTTGGTCCAAATACCCATTCACACAATCTTGGTCCAAATACGCTATGCCACTAATTCTTGTAGGATGTATGGCTGTACTCTACAAGTGGTTTCCAGGTACATTCCGGTTTCTGGCCTGTTTTGAGCTGTTCAGCATATTCGGCGGTCATGGTGGCGCTGCTGATAACGGAGGAGGGGCGGCAACCGTTTGGGGACTGACAGCCGCCGGAGTAGCCGCTCTGGTTTCGATTCTGGGTGGTGTTGTTGTTGCCTGCCTCCGCACAACTGCTTCATGGCTCGCCACTCTGCTTCTAATTGGGAGAAACTCCGGGAGACACTCCGCGATCGCCGTCAGAGCGGGCGGAGCCGTCGTGGCCAGAGGAGTATTTGCAGTTGGCAGTGCCATCGGACATGGCGGAGCCGTCGTGGGCAGAGCCATCGGAAATGGCGGAGCCGTCGTGGGCAGAGCCATCGGACAGGGCGGAGCCTTCGTGGGCAGAGCCATCGGACAGGGCGGAGCCGTCGTGGGCAGGGGCGGAGCCGTCGTGTGCAGAGCCATCGTCCGACCGGCCAGAGCCGTCTTCGGCAGAGGCGACACAGCGAAGCCACAGCCACCGCAGAGGGCCTGCGCTGATCTAAGGGCTCTGAGGCTCGGTAGGGGTGTGCATTCACATGTAGTAGTGTGTGGGTGTGGGTCGGAACCGTTTGTTCAGGCGGCTCTTGTTAGCTTGTATTCAAAATGTGGCGAGTTTGGGGTTGCAAGCAAGGTGTTCGATGAAATGCCTGCGAGGAGTGTTGTGGGTTGGAACTCGATGATTTCGGGGTACGAGCAGAACGGGTTTTCGAGAGAGGCGATTGAGGTGTTTAATGAGATGAGGGAGGTGGGTGTTGAGCCGGATTCGACTGGTTTTGTGAATGTTTTGGCGGCGTGTTCTCAGTTGGGAGATGTTGGTTTAGGGAGTTCGGTGCATGATGAGGTTGTCAGCAAGAATATAGAAGTGAATGTGGCTCTAGGGACTTGGCTGATTAACATGTATGCTAGGTGTGGGAATGTGAGCAAAGCGCGAGAAGTTTTCGATTGTATGGATGAAAGGAATGTTATTTCTTGGACTGCTATGATTTCGGGGTACGCAATGAATGGTTGTGGTAGTCAAGCTATGGAGCTTTTTCGCGTAATGAGAGCTCGTGGTCCAAGTCCTAACACCGTGACGTTTGTGGCAGTCTTGGCGGGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

577

Amino Acids

59.51

Weight (kDa)

8.95

Isoelectric Point (pI)

55.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	430 - 473	6.5e-10	PPR repeat family
PPR	PF01535	434 - 462	9.8e-09	PPR repeat
PPR_2	PF13041	530 - 574	2.7e-09	PPR repeat family
PPR	PF01535	533 - 562	7.8e-07	PPR repeat

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: OG0006665)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33760
fragaria_vesca	FvH4_4g05520
malus_domestica	MD10G1295100.v1.1
prunus_persica	Prupe.4G047100_v2.0.a1
pyrus_communis	pycom10g24690
rosa_chinensis	RchiOBHm_Chr5g0008361
rosa_laevigata	RLG00000031504 RLG00000031508 RLG00000031509 RLG00000031512 RLG00000031518 RLG00000031519 RLG00000031564
rosa_multiflora	Rmu_sc0008805.1_g000001
rosa_roxburghii	Rroxscaffold_1G00055520 Rroxscaffold_1G00068130 Rroxscaffold_1G00068520
rosa_rugosa	Rorug04G0435500
rosa_samantha	Rh5AG059900 Rh5AG060000 Rh5AG064000 Rh5BG060900 Rh5CG070900 Rh6CG126900
rosa_wichuraiana	Rw5G005700 Rw5G006030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	2 cut(s)	734, 854
AccII	CGCG	3 cut(s)	839, 1561, 1668
AclWI	GGATC	4 cut(s)	125, 138, 233, 246
AcoI	YGGCCR	4 cut(s)	117, 225, 870, 1065
AfaI	GTAC	5 cut(s)	503, 594, 616, 1322, 1625
AfiI	CCNNNNNNNGG	3 cut(s)	252, 468, 628
AflIII	ACRYGT	3 cut(s)	473, 1168, 1527
AgsI	TTSAA	2 cut(s)	260, 1233
AjiI	CACGTC	1 cut(s)	474
AjnI	CCWGG	1 cut(s)	610
AjuI	GAANNNNNNNTTGG	2 cut(s)	518, 550
AluBI	AGCT	5 cut(s)	643, 1224, 1652, 1660, 1679
AluI	AGCT	5 cut(s)	643, 1224, 1652, 1660, 1679
Alw21I	GWGCWC	1 cut(s)	1681
Alw26I	GTCTC	2 cut(s)	263, 823
AlwI	GGATC	4 cut(s)	125, 138, 233, 246
AoxI	GGCC	6 cut(s)	117, 225, 630, 870, 1065, 1119
ApeKI	GCWGC	1 cut(s)	674
AsiSI	GCGATCGC	1 cut(s)	843
AspLEI	GCGC	3 cut(s)	674, 1127, 1561
AspS9I	GGNCC	4 cut(s)	522, 549, 1119, 1685
AsuC2I	CCSGG	1 cut(s)	826
AsuHPI	GGTGA	8 cut(s)	31, 48, 67, 324, 349, 361, 381, 426
AvaII	GGWCC	3 cut(s)	522, 549, 1685
BalI	TGGCCA	2 cut(s)	119, 872
BamHI	GGATCC	2 cut(s)	130, 238
BanII	GRGCYC	2 cut(s)	1141, 1681
BauI	CACGAG	1 cut(s)	1680
BbsI	GAAGAC	1 cut(s)	1069
Bbv12I	GWGCWC	1 cut(s)	1681
BbvCI	CCTCAGC	1 cut(s)	199
BbvI	GCAGC	1 cut(s)	661
BccI	CCATC	9 cut(s)	77, 142, 337, 343, 908, 941, 974, 1007, 1061
BceAI	ACGGC	8 cut(s)	269, 830, 848, 902, 935, 1001, 1022, 1058
BciT130I	CCWGG	1 cut(s)	612
BcnI	CCSGG	1 cut(s)	826
BcoDI	GTCTC	2 cut(s)	263, 823
BfaI	CTAG	3 cut(s)	1508, 1536, 1729
BfoI	RGCGCY	1 cut(s)	675
BglI	GCCNNNNNGGC	1 cut(s)	869
Bme1390I	CCNGG	2 cut(s)	612, 826
Bme18I	GGWCC	3 cut(s)	522, 549, 1685
BmgBI	CACGTC	1 cut(s)	474
BmgT120I	GGNCC	4 cut(s)	522, 549, 1119, 1685
BmrFI	CCNGG	2 cut(s)	612, 826
BmsI	GCATC	4 cut(s)	14, 334, 363, 440
BpiI	GAAGAC	1 cut(s)	1069
Bpu10I	CCTNAGC	1 cut(s)	199
BpuMI	CCSGG	1 cut(s)	826
BsaWI	WCCGGW	1 cut(s)	621
Bsc4I	CCNNNNNNNGG	3 cut(s)	252, 468, 628
Bse118I	RCCGGY	1 cut(s)	1063
Bse1I	ACTGG	1 cut(s)	1405
Bse3DI	GCAATG	1 cut(s)	1635
BseBI	CCWGG	1 cut(s)	612
BseGI	GGATG	3 cut(s)	325, 587, 1588
BseLI	CCNNNNNNNGG	3 cut(s)	252, 468, 628
BseMI	GCAATG	1 cut(s)	1635
BseMII	CTCAG	5 cut(s)	185, 213, 512, 1133, 1445
BseNI	ACTGG	1 cut(s)	1405
BseXI	GCAGC	1 cut(s)	661
BsgI	GTGCAG	1 cut(s)	1066
Bsh1236I	CGCG	3 cut(s)	839, 1561, 1668
Bsh1285I	CGRYCG	2 cut(s)	843, 1064
BshFI	GGCC	6 cut(s)	119, 227, 632, 872, 1067, 1121
BsiEI	CGRYCG	2 cut(s)	843, 1064
BsiHKAI	GWGCWC	1 cut(s)	1681
BsiSI	CCGG	6 cut(s)	224, 622, 723, 825, 1064, 1391
BslFI	GGGAC	3 cut(s)	484, 723, 1525
BslI	CCNNNNNNNGG	3 cut(s)	252, 468, 628
BsmAI	GTCTC	2 cut(s)	263, 823
BsmFI	GGGAC	3 cut(s)	484, 723, 1525
BsmI	GAATGC	1 cut(s)	1162
BsnI	GGCC	6 cut(s)	119, 227, 632, 872, 1067, 1121
Bsp1286I	GDGCHC	2 cut(s)	1141, 1681
Bsp143I	GATC	4 cut(s)	130, 238, 840, 1129
BspANI	GGCC	6 cut(s)	119, 227, 632, 872, 1067, 1121
BspCNI	CTCAG	5 cut(s)	184, 212, 511, 1134, 1444
BspFNI	CGCG	3 cut(s)	839, 1561, 1668
BspPI	GGATC	4 cut(s)	125, 138, 233, 246
BsrBI	CCGCTC	2 cut(s)	734, 854
BsrDI	GCAATG	1 cut(s)	1635
BsrFI	RCCGGY	1 cut(s)	1063
BsrI	ACTGG	1 cut(s)	1405
BssAI	RCCGGY	1 cut(s)	1063
BssMI	GATC	4 cut(s)	130, 238, 840, 1129
BssSI	CACGAG	1 cut(s)	1680
Bst2BI	CACGAG	1 cut(s)	1680
Bst2UI	CCWGG	1 cut(s)	612
Bst4CI	ACNGT	4 cut(s)	367, 703, 1200, 1702
BstC8I	GCNNGC	7 cut(s)	769, 795, 856, 1123, 1258, 1281, 1726
BstDEI	CTNAG	7 cut(s)	171, 199, 483, 498, 1133, 1142, 1431
BstF5I	GGATG	3 cut(s)	325, 587, 1588
BstFNI	CGCG	3 cut(s)	839, 1561, 1668
BstH2I	RGCGCY	1 cut(s)	675
BstHHI	GCGC	3 cut(s)	674, 1127, 1561
BstKTI	GATC	4 cut(s)	133, 241, 843, 1132
BstMAI	GTCTC	2 cut(s)	263, 823
BstMBI	GATC	4 cut(s)	130, 238, 840, 1129
BstMCI	CGRYCG	2 cut(s)	843, 1064
BstNI	CCWGG	1 cut(s)	612
BstNSI	RCATGY	2 cut(s)	1172, 1531
BstSCI	CCNGG	2 cut(s)	610, 824
BstUI	CGCG	3 cut(s)	839, 1561, 1668
BstV1I	GCAGC	1 cut(s)	661
BstV2I	GAAGAC	1 cut(s)	1069
BstX2I	RGATCY	2 cut(s)	130, 238
BstXI	CCANNNNNNTGG	1 cut(s)	342
BstYI	RGATCY	2 cut(s)	130, 238
BsuRI	GGCC	6 cut(s)	119, 227, 632, 872, 1067, 1121
BtrI	CACGTC	1 cut(s)	474
BtsCI	GGATG	3 cut(s)	325, 587, 1588
BtsI	GCAGTG	1 cut(s)	901
BtsIMutI	CAGTG	1 cut(s)	901
Cac8I	GCNNGC	7 cut(s)	769, 795, 856, 1123, 1258, 1281, 1726
CfoI	GCGC	3 cut(s)	674, 1127, 1561
Cfr10I	RCCGGY	1 cut(s)	1063
Cfr13I	GGNCC	4 cut(s)	522, 549, 1119, 1685
Csp6I	GTAC	5 cut(s)	502, 593, 615, 1321, 1624
CviAII	CATG	8 cut(s)	144, 310, 665, 789, 908, 1169, 1466, 1528
CviQI	GTAC	5 cut(s)	502, 593, 615, 1321, 1624
DdeI	CTNAG	7 cut(s)	171, 199, 483, 498, 1133, 1142, 1431
DpnI	GATC	4 cut(s)	132, 240, 842, 1131
DpnII	GATC	4 cut(s)	130, 238, 840, 1129
EaeI	YGGCCR	4 cut(s)	117, 225, 870, 1065
Ecl136II	GAGCTC	1 cut(s)	1679
Eco24I	GRGCYC	2 cut(s)	1141, 1681
Eco47I	GGWCC	3 cut(s)	522, 549, 1685
Eco53kI	GAGCTC	1 cut(s)	1679
EcoICRI	GAGCTC	1 cut(s)	1679
EcoO109I	RGGNCCY	1 cut(s)	1119
EcoRII	CCWGG	1 cut(s)	610
EcoT38I	GRGCYC	2 cut(s)	1141, 1681
FaeI	CATG	8 cut(s)	147, 313, 668, 792, 911, 1172, 1469, 1531
FaqI	GGGAC	3 cut(s)	484, 723, 1525
FatI	CATG	8 cut(s)	143, 309, 664, 788, 907, 1168, 1465, 1527
FauI	CCCGC	4 cut(s)	94, 411, 847, 1717
FokI	GGATG	3 cut(s)	312, 594, 1595
FriOI	GRGCYC	2 cut(s)	1141, 1681
FspBI	CTAG	3 cut(s)	1508, 1536, 1729
GlaI	GCGC	3 cut(s)	673, 1126, 1560
HaeII	RGCGCY	1 cut(s)	675
HaeIII	GGCC	6 cut(s)	119, 227, 632, 872, 1067, 1121
HapII	CCGG	6 cut(s)	224, 622, 723, 825, 1064, 1391
HhaI	GCGC	3 cut(s)	674, 1127, 1561
Hin1II	CATG	8 cut(s)	147, 313, 668, 792, 911, 1172, 1469, 1531
Hin6I	GCGC	3 cut(s)	672, 1125, 1559
HinP1I	GCGC	3 cut(s)	672, 1125, 1559
HinfI	GANTC	4 cut(s)	188, 515, 745, 1394
HpaII	CCGG	6 cut(s)	224, 622, 723, 825, 1064, 1391
HphI	GGTGA	8 cut(s)	31, 48, 67, 324, 349, 361, 381, 426
Hpy188I	TCNGA	8 cut(s)	851, 905, 938, 971, 1004, 1061, 1143, 1195
Hpy188III	TCNNGA	3 cut(s)	177, 469, 1341
Hpy99I	CGWCG	9 cut(s)	53, 130, 187, 238, 869, 923, 956, 1022, 1043
HpyAV	CCTTC	4 cut(s)	105, 252, 308, 994
HpyCH4III	ACNGT	4 cut(s)	367, 703, 1200, 1702
HpyCH4IV	ACGT	2 cut(s)	473, 1706
HpyCH4V	TGCA	6 cut(s)	325, 887, 1047, 1162, 1256, 1465
HpyF3I	CTNAG	7 cut(s)	171, 199, 483, 498, 1133, 1142, 1431
HpySE526I	ACGT	2 cut(s)	473, 1706
Hsp92II	CATG	8 cut(s)	147, 313, 668, 792, 911, 1172, 1469, 1531
HspAI	GCGC	3 cut(s)	672, 1125, 1559
Kzo9I	GATC	4 cut(s)	130, 238, 840, 1129
LmnI	GCTCC	8 cut(s)	497, 860, 914, 947, 980, 1013, 1034, 1657
Lsp1109I	GCAGC	1 cut(s)	661
LweI	GCATC	4 cut(s)	14, 334, 363, 440
MaeI	CTAG	3 cut(s)	1508, 1536, 1729
MaeII	ACGT	2 cut(s)	473, 1706
MaeIII	GTNAC	2 cut(s)	367, 1702
MalI	GATC	4 cut(s)	132, 240, 842, 1131
MbiI	CCGCTC	2 cut(s)	734, 854
MboI	GATC	4 cut(s)	130, 238, 840, 1129
MboII	GAAGA	2 cut(s)	183, 1069
MflI	RGATCY	2 cut(s)	130, 238
MhlI	GDGCHC	2 cut(s)	1141, 1681
MlsI	TGGCCA	2 cut(s)	119, 872
MluCI	AATT	2 cut(s)	570, 810
MluNI	TGGCCA	2 cut(s)	119, 872
MmeI	TCCRAC	4 cut(s)	446, 1084, 1173, 1280
Mox20I	TGGCCA	2 cut(s)	119, 872
MscI	TGGCCA	2 cut(s)	119, 872
MseI	TTAA	2 cut(s)	1362, 1524
MslI	CAYNNNNRTG	1 cut(s)	1167
Msp20I	TGGCCA	2 cut(s)	119, 872
MspA1I	CMGCKG	1 cut(s)	203
MspI	CCGG	6 cut(s)	224, 622, 723, 825, 1064, 1391
MspR9I	CCNGG	2 cut(s)	612, 826
Mva1269I	GAATGC	1 cut(s)	1162
MvaI	CCWGG	1 cut(s)	612
MvnI	CGCG	3 cut(s)	839, 1561, 1668
NciI	CCSGG	1 cut(s)	826
NdeII	GATC	4 cut(s)	130, 238, 840, 1129
NlaIII	CATG	8 cut(s)	147, 313, 668, 792, 911, 1172, 1469, 1531
NmuCI	GTSAC	2 cut(s)	367, 1702
NspI	RCATGY	2 cut(s)	1172, 1531
PciI	ACATGT	2 cut(s)	1168, 1527
PcsI	WCGNNNNNNNCGW	2 cut(s)	1086, 1346
PctI	GAATGC	1 cut(s)	1162
PfeI	GAWTC	4 cut(s)	188, 515, 745, 1394
PfoI	TCCNGGA	1 cut(s)	824
Ple19I	CGATCG	1 cut(s)	843
PscI	ACATGT	2 cut(s)	1168, 1527
Psp124BI	GAGCTC	1 cut(s)	1681
Psp6I	CCWGG	1 cut(s)	610
PspGI	CCWGG	1 cut(s)	610
PspPI	GGNCC	4 cut(s)	522, 549, 1119, 1685
PsuI	RGATCY	2 cut(s)	130, 238
PvuI	CGATCG	1 cut(s)	843
RgaI	GCGATCGC	1 cut(s)	843
RsaI	GTAC	5 cut(s)	503, 594, 616, 1322, 1625
RsaNI	GTAC	5 cut(s)	502, 593, 615, 1321, 1624
RseI	CAYNNNNRTG	1 cut(s)	1167
SacI	GAGCTC	1 cut(s)	1681
SaqAI	TTAA	2 cut(s)	1362, 1524
Sau3AI	GATC	4 cut(s)	130, 238, 840, 1129
Sau96I	GGNCC	4 cut(s)	522, 549, 1119, 1685
ScrFI	CCNGG	2 cut(s)	612, 826
SduI	GDGCHC	2 cut(s)	1141, 1681
SfaAI	GCGATCGC	1 cut(s)	843
SfaNI	GCATC	4 cut(s)	14, 334, 363, 440
SgfI	GCGATCGC	1 cut(s)	843
SinI	GGWCC	3 cut(s)	522, 549, 1685
SmiMI	CAYNNNNRTG	1 cut(s)	1167
Sse9I	AATT	2 cut(s)	570, 810
SspMI	CTAG	3 cut(s)	1508, 1536, 1729
SstI	GAGCTC	1 cut(s)	1681
StyD4I	CCNGG	2 cut(s)	610, 824
TaaI	ACNGT	4 cut(s)	367, 703, 1200, 1702
TaiI	ACGT	2 cut(s)	476, 1709
TaqI	TCGA	6 cut(s)	743, 1269, 1307, 1340, 1397, 1572
TasI	AATT	2 cut(s)	570, 810
TatI	WGTACW	1 cut(s)	592
TfiI	GAWTC	4 cut(s)	188, 515, 745, 1394
Tru1I	TTAA	2 cut(s)	1362, 1524
Tru9I	TTAA	2 cut(s)	1362, 1524
TscAI	CASTG	1 cut(s)	901
TseFI	GTSAC	2 cut(s)	367, 1702
TseI	GCWGC	1 cut(s)	674
Tsp45I	GTSAC	2 cut(s)	367, 1702
TspDTI	ATGAA	5 cut(s)	7, 777, 1287, 1599, 1646
TspGWI	ACGGA	4 cut(s)	143, 200, 251, 699
TspRI	CASTG	1 cut(s)	901
VpaK11BI	GGWCC	3 cut(s)	522, 549, 1685
XceI	RCATGY	2 cut(s)	1172, 1531
XcmI	CCANNNNNNNNNTGG	1 cut(s)	141
XspI	CTAG	3 cut(s)	1508, 1536, 1729

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