Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0009495

Physical Location & Seq

Genomic Coordinates Reverse (-)

72057432 .. 72058847

Gene Structure 1416 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000021112

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1416 bp

ATGCTGGAGTCTTTGCTTCAGCTCCTCCAACGCTTCTTGAACAGCCCAAACCAAATCAAACAAATCCATTCCCGCCTAATTACCAACGGTCATCTTCTTCGTAACCCAAACCCTAAATTTTCAAAATGGAGGACAACCCTATTCTACAACACTCTGATCAGAGCCCACCTCGGTTTCGGCGAAGCCCACAAGGCTTTTTTTCTCTTTACCCAGATGCTTTCCCACCAAGCCCACCCCAACAGCCACACATTCCCTCCGCTCGTCAAAGCCGTCGCCGTCGCCGCCGGCGGTGGCTGGCTGTGTAACGGCACGGCCCTCCACGCCCAAGTTGCGAAACTTGGAGTTTGGGGTGACCCAGTTGTGCAGACGTCGTTTGTGAGCATGTATGCTCGGTTTGGTGAAGTGTGGGATGCACGTAAGGTGTTCGATGAAATGACTGAACCGTGTGTGGTTGCGTGCAATGCGATGATTGATGGGTTGGGGAAGAATGGGGACATGGGTGGTGCTGTTTCGATGTTCAAAAGGATGCCGGAGAGGGATGTGGTTTCGTGGACGAGTGTGATTAGTGGGTTTGGGAGGAATGGGTGGTTTGGTGAGGGGGTTTGGTTTTTCAAGAGGATGATGGGGAGTGAGGATGTGAGGGGTGGTTTTGTGAAGCCAAATGAAGCTACTTTTGTTAGTGTGCTTTCTTCATGTGCTAATTTGGATGGGTGGGGATCTCTTTATTGGGGGAAGCAAATTCATGGGTATGTTGTTAGGAATGAGGTGCAGTTGAGTGTTTTTATGGGGACTGCATTGGTGGATCTTTATGGGAAGTCGGGTTGTTTGAGTGGTGCTTGGAATGTTTTTGAGGAAATGAGGGTTAAAGAAGTTTGTACATGGAACGCAATGATCTCAGCGCTTTCTTTGAATGGCAGGGAGAAGGAGGCTTTGCAGTTGTTTGAGAAAATGATGGAAAAGAGGTTGCGGCCTAATGGGGTTACATTTGTTGCAGTTCTCACAGCTTGTGCTCGTGGGAATTCGGTGAAGTGTGGTTTGGATTTGTTTAAATCAATGTCCAAGGACTTTGGGGTTGAACCAATAATGGAGCACTATGGTTGTGTGGTTGATCTCCTAGGCAGAGCAGGACTTTTTAAGGAGGCAACTGAACTTCTTAAGAACATGCCTTTTCAGCCTGATGCTTCTGTGTTGGGGGCTCTTTTGGGTTCTTGTAAGATTCATGGGACCGCTGAGCTGGGAAATGAAGTTGGGAAAAAATTGATTGAGTTGCAGCCACAGCATTGTGGACGATACTTAGTTTTGTCAAACATTTATGCTGCGAACGAGAGGTGGGATCATGCTGCTGCTGTGAGGAAAGCAATGGTACATGCTGGAATTCAGAAAATTCCAGCCTTTAGTAGGATTGATGTAAGGTAG

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

PPR PPR_2

Protein Analysis

472

Amino Acids

52.16

Weight (kDa)

9.1

Isoelectric Point (pI)

31.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	46 - 89	2.1e-06	PPR repeat family
PPR_2	PF13041	148 - 180	1.3e-06	PPR repeat family
PPR	PF01535	151 - 180	2.8e-07	PPR repeat
PPR	PF01535	182 - 209	6.1e-06	PPR repeat
PPR_2	PF13041	291 - 338	8.1e-11	PPR repeat family
PPR_3	PF13812	291 - 336	2.5e-07	Pentatricopeptide repeat domain
PPR	PF01535	293 - 321	8.9e-08	PPR repeat
E_motif	PF20431	409 - 468	2.1e-11	E motif

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: OG0009495)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10330
fragaria_vesca	FvH4_6g42841
malus_domestica	MD09G1072300.v1.1
prunus_persica	Prupe.3G214500_v2.0.a1
pyrus_communis	pycom09g03390 pycom09g03410 pycom09g03420 pycom17g09460
rosa_chinensis	RchiOBHm_Chr2g0158781
rosa_laevigata	RLG00000021112 RLG00000025824
rosa_multiflora	Rmu_sc0003664.1_g000002 Rmu_sc0003664.1_g000004 Rmu_sc0038467.1_g000001 Rmu_sc0038467.1_g000002
rosa_roxburghii	Rroxscaffold_2G00091010
rosa_rugosa	Rorug02G0472600
rosa_samantha	Rh2BG550900 Rh2CG521400 Rh2DG560700
rosa_wichuraiana	Rw2G044540 Rw3G001550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	371
AccBSI	CCGCTC	1 cut(s)	259
AciI	CCGC	6 cut(s)	73, 257, 282, 288, 967, 1227
AclWI	GGATC	3 cut(s)	724, 810, 1341
AcsI	RAATTY	5 cut(s)	116, 738, 1018, 1374, 1383
AcyI	GRCGYC	1 cut(s)	368
AfaI	GTAC	2 cut(s)	877, 1365
AfeI	AGCGCT	1 cut(s)	900
AfiI	CCNNNNNNNGG	1 cut(s)	1398
AflII	CTTAAG	1 cut(s)	1154
AgsI	TTSAA	6 cut(s)	40, 123, 520, 613, 910, 1076
AjuI	GAANNNNNNNTTGG	2 cut(s)	1019, 1051
AluBI	AGCT	4 cut(s)	22, 668, 1004, 1234
AluI	AGCT	4 cut(s)	22, 668, 1004, 1234
Alw21I	GWGCWC	2 cut(s)	1012, 1092
AlwI	GGATC	3 cut(s)	724, 810, 1341
Aor51HI	AGCGCT	1 cut(s)	900
AoxI	GGCC	2 cut(s)	312, 968
ApeKI	GCWGC	4 cut(s)	1270, 1316, 1340, 1343
ApoI	RAATTY	5 cut(s)	116, 738, 1018, 1374, 1383
AspA2I	CCTAGG	1 cut(s)	1114
AspLEI	GCGC	1 cut(s)	901
AspS9I	GGNCC	2 cut(s)	313, 1224
AsuHPI	GGTGA	4 cut(s)	362, 410, 605, 1036
AvaII	GGWCC	1 cut(s)	1224
AvrII	CCTAGG	1 cut(s)	1114
BanII	GRGCYC	2 cut(s)	166, 1198
BauI	CACGAG	1 cut(s)	1011
Bbv12I	GWGCWC	2 cut(s)	1012, 1092
BbvI	GCAGC	4 cut(s)	1282, 1303, 1327, 1330
BccI	CCATC	4 cut(s)	467, 616, 701, 946
BceAI	ACGGC	4 cut(s)	254, 260, 322, 327
BclI	TGATCA	1 cut(s)	156
BfaI	CTAG	1 cut(s)	1115
BfoI	RGCGCY	1 cut(s)	902
BfrI	CTTAAG	1 cut(s)	1154
BglI	GCCNNNNNGGC	1 cut(s)	191
BisI	GCNGC	6 cut(s)	282, 968, 1271, 1317, 1341, 1344
BlnI	CCTAGG	1 cut(s)	1114
BlpI	GCTNAGC	1 cut(s)	1230
BlsI	GCNGC	6 cut(s)	283, 969, 1272, 1318, 1342, 1345
Bme18I	GGWCC	1 cut(s)	1224
BmgT120I	GGNCC	2 cut(s)	313, 1224
BmiI	GGNNCC	1 cut(s)	1225
BmrI	ACTGGG	1 cut(s)	350
BmsI	GCATC	4 cut(s)	204, 400, 516, 1168
BmuI	ACTGGG	1 cut(s)	350
BplI	GAGNNNNNCTC	2 cut(s)	153, 185
BpmI	CTGGAG	1 cut(s)	26
Bpu1102I	GCTNAGC	1 cut(s)	1230
BsaAI	YACGTR	1 cut(s)	416
BsaHI	GRCGYC	1 cut(s)	368
BsaJI	CCNNGG	3 cut(s)	169, 1059, 1114
BsaXI	ACNNNNNCTCC	2 cut(s)	238, 268
Bsc4I	CCNNNNNNNGG	1 cut(s)	1398
Bse118I	RCCGGY	1 cut(s)	284
Bse1I	ACTGG	1 cut(s)	356
Bse3DI	GCAATG	3 cut(s)	466, 894, 1365
BseDI	CCNNGG	3 cut(s)	169, 1059, 1114
BseGI	GGATG	6 cut(s)	415, 531, 544, 624, 640, 712
BseLI	CCNNNNNNNGG	1 cut(s)	1398
BseMI	GCAATG	3 cut(s)	466, 894, 1365
BseMII	CTCAG	2 cut(s)	909, 1221
BseNI	ACTGG	1 cut(s)	356
BseRI	GAGGAG	1 cut(s)	14
BseXI	GCAGC	4 cut(s)	1282, 1303, 1327, 1330
BseYI	CCCAGC	1 cut(s)	1234
BsgI	GTGCAG	2 cut(s)	383, 788
BshFI	GGCC	2 cut(s)	314, 970
BsiHKAI	GWGCWC	2 cut(s)	1012, 1092
BsiSI	CCGG	2 cut(s)	285, 530
BslFI	GGGAC	3 cut(s)	506, 802, 1237
BslI	CCNNNNNNNGG	1 cut(s)	1398
BsmFI	GGGAC	3 cut(s)	506, 802, 1237
BsnI	GGCC	2 cut(s)	314, 970
Bsp1286I	GDGCHC	4 cut(s)	166, 1012, 1092, 1198
Bsp1407I	TGTACA	1 cut(s)	875
Bsp143I	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
Bsp1720I	GCTNAGC	1 cut(s)	1230
BspACI	CCGC	6 cut(s)	73, 257, 282, 288, 967, 1227
BspANI	GGCC	2 cut(s)	314, 970
BspCNI	CTCAG	2 cut(s)	908, 1222
BspLI	GGNNCC	1 cut(s)	1225
BspPI	GGATC	3 cut(s)	724, 810, 1341
BspTI	CTTAAG	1 cut(s)	1154
BsrBI	CCGCTC	1 cut(s)	259
BsrDI	GCAATG	3 cut(s)	466, 894, 1365
BsrFI	RCCGGY	1 cut(s)	284
BsrGI	TGTACA	1 cut(s)	875
BsrI	ACTGG	1 cut(s)	356
BssAI	RCCGGY	1 cut(s)	284
BssECI	CCNNGG	3 cut(s)	169, 1059, 1114
BssMI	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
BssNI	GRCGYC	1 cut(s)	368
BssSI	CACGAG	1 cut(s)	1011
BssT1I	CCWWGG	2 cut(s)	1059, 1114
Bst2BI	CACGAG	1 cut(s)	1011
Bst4CI	ACNGT	2 cut(s)	89, 444
BstACI	GRCGYC	1 cut(s)	368
BstAFI	CTTAAG	1 cut(s)	1154
BstAUI	TGTACA	1 cut(s)	875
BstBAI	YACGTR	1 cut(s)	416
BstC8I	GCNNGC	3 cut(s)	286, 296, 457
BstDEI	CTNAG	3 cut(s)	895, 1230, 1294
BstEII	GGTNACC	1 cut(s)	350
BstENI	CCTNNNNNAGG	1 cut(s)	1396
BstF5I	GGATG	6 cut(s)	415, 531, 544, 624, 640, 712
BstH2I	RGCGCY	1 cut(s)	902
BstHHI	GCGC	1 cut(s)	901
BstKTI	GATC	6 cut(s)	159, 719, 805, 894, 1111, 1336
BstMBI	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
BstMWI	GCNNNNNNNGC	7 cut(s)	191, 281, 320, 329, 461, 1171, 1276
BstNSI	RCATGY	3 cut(s)	385, 1165, 1370
BstPI	GGTNACC	1 cut(s)	350
BstV1I	GCAGC	4 cut(s)	1282, 1303, 1327, 1330
BstX2I	RGATCY	2 cut(s)	716, 802
BstYI	RGATCY	2 cut(s)	716, 802
BsuRI	GGCC	2 cut(s)	314, 970
BtgZI	GCGATG	1 cut(s)	479
BtsCI	GGATG	6 cut(s)	415, 531, 544, 624, 640, 712
Cac8I	GCNNGC	3 cut(s)	286, 296, 457
CfoI	GCGC	1 cut(s)	901
Cfr10I	RCCGGY	1 cut(s)	284
Cfr13I	GGNCC	2 cut(s)	313, 1224
Csp6I	GTAC	2 cut(s)	876, 1364
CviAII	CATG	9 cut(s)	382, 496, 693, 743, 879, 1162, 1220, 1337, 1367
CviQI	GTAC	2 cut(s)	876, 1364
DdeI	CTNAG	3 cut(s)	895, 1230, 1294
DpnI	GATC	6 cut(s)	158, 718, 804, 893, 1110, 1335
DpnII	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
DraI	TTTAAA	1 cut(s)	1048
Eco130I	CCWWGG	2 cut(s)	1059, 1114
Eco24I	GRGCYC	2 cut(s)	166, 1198
Eco47I	GGWCC	1 cut(s)	1224
Eco47III	AGCGCT	1 cut(s)	900
Eco91I	GGTNACC	1 cut(s)	350
EcoNI	CCTNNNNNAGG	1 cut(s)	1396
EcoO65I	GGTNACC	1 cut(s)	350
EcoRI	GAATTC	2 cut(s)	1018, 1374
EcoT14I	CCWWGG	2 cut(s)	1059, 1114
EcoT38I	GRGCYC	2 cut(s)	166, 1198
ErhI	CCWWGG	2 cut(s)	1059, 1114
FaeI	CATG	9 cut(s)	385, 499, 696, 746, 882, 1165, 1223, 1340, 1370
FaqI	GGGAC	3 cut(s)	506, 802, 1237
FatI	CATG	9 cut(s)	381, 495, 692, 742, 878, 1161, 1219, 1336, 1366
FauI	CCCGC	1 cut(s)	80
FbaI	TGATCA	1 cut(s)	156
Fnu4HI	GCNGC	6 cut(s)	282, 968, 1271, 1317, 1341, 1344
FokI	GGATG	6 cut(s)	422, 538, 551, 631, 647, 719
FriOI	GRGCYC	2 cut(s)	166, 1198
Fsp4HI	GCNGC	6 cut(s)	282, 968, 1271, 1317, 1341, 1344
FspBI	CTAG	1 cut(s)	1115
GlaI	GCGC	1 cut(s)	900
GluI	GCNGC	6 cut(s)	282, 968, 1271, 1317, 1341, 1344
GsaI	CCCAGC	1 cut(s)	1238
GsuI	CTGGAG	1 cut(s)	26
HaeII	RGCGCY	1 cut(s)	902
HaeIII	GGCC	2 cut(s)	314, 970
HapII	CCGG	2 cut(s)	285, 530
HhaI	GCGC	1 cut(s)	901
Hin1I	GRCGYC	1 cut(s)	368
Hin1II	CATG	9 cut(s)	385, 499, 696, 746, 882, 1165, 1223, 1340, 1370
Hin6I	GCGC	1 cut(s)	899
HinP1I	GCGC	1 cut(s)	899
HinfI	GANTC	2 cut(s)	8, 1216
HpaII	CCGG	2 cut(s)	285, 530
HphI	GGTGA	4 cut(s)	362, 410, 605, 1036
Hpy166II	GTNNAC	2 cut(s)	552, 1286
Hpy188I	TCNGA	3 cut(s)	156, 161, 1380
Hpy188III	TCNNGA	2 cut(s)	37, 613
Hpy8I	GTNNAC	2 cut(s)	552, 1286
Hpy99I	CGWCG	3 cut(s)	275, 281, 373
HpyAV	CCTTC	1 cut(s)	916
HpyCH4III	ACNGT	2 cut(s)	89, 444
HpyCH4IV	ACGT	2 cut(s)	368, 415
HpyCH4V	TGCA	8 cut(s)	364, 413, 459, 769, 794, 934, 992, 1270
HpyF10VI	GCNNNNNNNGC	7 cut(s)	191, 281, 320, 329, 461, 1171, 1276
HpyF3I	CTNAG	3 cut(s)	895, 1230, 1294
HpySE526I	ACGT	2 cut(s)	368, 415
Hsp92I	GRCGYC	1 cut(s)	368
Hsp92II	CATG	9 cut(s)	385, 499, 696, 746, 882, 1165, 1223, 1340, 1370
HspAI	GCGC	1 cut(s)	899
KroI	GCCGGC	1 cut(s)	284
KroNI	GCCGGC	1 cut(s)	286
Ksp22I	TGATCA	1 cut(s)	156
Kzo9I	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
LmnI	GCTCC	2 cut(s)	27, 1087
Lsp1109I	GCAGC	4 cut(s)	1282, 1303, 1327, 1330
LweI	GCATC	4 cut(s)	204, 400, 516, 1168
MaeI	CTAG	1 cut(s)	1115
MaeII	ACGT	2 cut(s)	368, 415
MaeIII	GTNAC	4 cut(s)	101, 302, 350, 979
MalI	GATC	6 cut(s)	158, 718, 804, 893, 1110, 1335
MbiI	CCGCTC	1 cut(s)	259
MboI	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
MboII	GAAGA	4 cut(s)	86, 89, 496, 681
MflI	RGATCY	2 cut(s)	716, 802
MhlI	GDGCHC	4 cut(s)	166, 1012, 1092, 1198
MluCI	AATT	8 cut(s)	78, 116, 700, 738, 1018, 1256, 1374, 1383
MlyI	GAGTC	1 cut(s)	17
MmeI	TCCRAC	1 cut(s)	52
MreI	CGCCGGCG	1 cut(s)	284
MroNI	GCCGGC	1 cut(s)	284
MseI	TTAA	4 cut(s)	864, 1047, 1134, 1155
MslI	CAYNNNNRTG	1 cut(s)	747
MspA1I	CMGCKG	1 cut(s)	1229
MspCI	CTTAAG	1 cut(s)	1154
MspI	CCGG	2 cut(s)	285, 530
MwoI	GCNNNNNNNGC	7 cut(s)	191, 281, 320, 329, 461, 1171, 1276
NaeI	GCCGGC	1 cut(s)	286
NdeII	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
NgoMIV	GCCGGC	1 cut(s)	284
NlaIII	CATG	9 cut(s)	385, 499, 696, 746, 882, 1165, 1223, 1340, 1370
NlaIV	GGNNCC	1 cut(s)	1225
NmuCI	GTSAC	1 cut(s)	350
NspI	RCATGY	3 cut(s)	385, 1165, 1370
PcsI	WCGNNNNNNNCGW	2 cut(s)	177, 267
PdiI	GCCGGC	1 cut(s)	286
PfeI	GAWTC	1 cut(s)	1216
PkrI	GCNGC	6 cut(s)	283, 969, 1272, 1318, 1342, 1345
PleI	GAGTC	1 cut(s)	16
PpsI	GAGTC	1 cut(s)	16
Ppu21I	YACGTR	1 cut(s)	416
PspEI	GGTNACC	1 cut(s)	350
PspFI	CCCAGC	1 cut(s)	1234
PspN4I	GGNNCC	1 cut(s)	1225
PspPI	GGNCC	2 cut(s)	313, 1224
PsuI	RGATCY	2 cut(s)	716, 802
RsaI	GTAC	2 cut(s)	877, 1365
RsaNI	GTAC	2 cut(s)	876, 1364
RseI	CAYNNNNRTG	1 cut(s)	747
SaqAI	TTAA	4 cut(s)	864, 1047, 1134, 1155
SatI	GCNGC	6 cut(s)	282, 968, 1271, 1317, 1341, 1344
Sau3AI	GATC	6 cut(s)	156, 716, 802, 891, 1108, 1333
Sau96I	GGNCC	2 cut(s)	313, 1224
SchI	GAGTC	1 cut(s)	17
SduI	GDGCHC	4 cut(s)	166, 1012, 1092, 1198
SfaNI	GCATC	4 cut(s)	204, 400, 516, 1168
SgrAI	CRCCGGYG	1 cut(s)	284
SinI	GGWCC	1 cut(s)	1224
SmiMI	CAYNNNNRTG	1 cut(s)	747
SmlI	CTYRAG	1 cut(s)	1154
SmoI	CTYRAG	1 cut(s)	1154
Sse9I	AATT	8 cut(s)	78, 116, 700, 738, 1018, 1256, 1374, 1383
SsiI	CCGC	6 cut(s)	73, 257, 282, 288, 967, 1227
SspMI	CTAG	1 cut(s)	1115
StyI	CCWWGG	2 cut(s)	1059, 1114
TaaI	ACNGT	2 cut(s)	89, 444
TaiI	ACGT	2 cut(s)	371, 418
TaqI	TCGA	2 cut(s)	426, 512
TasI	AATT	8 cut(s)	78, 116, 700, 738, 1018, 1256, 1374, 1383
TatI	WGTACW	1 cut(s)	875
TauI	GCSGC	2 cut(s)	284, 970
TfiI	GAWTC	1 cut(s)	1216
Tru1I	TTAA	4 cut(s)	864, 1047, 1134, 1155
Tru9I	TTAA	4 cut(s)	864, 1047, 1134, 1155
TseFI	GTSAC	1 cut(s)	350
TseI	GCWGC	4 cut(s)	1270, 1316, 1340, 1343
Tsp45I	GTSAC	1 cut(s)	350
TspDTI	ATGAA	6 cut(s)	444, 678, 681, 731, 1208, 1257
Vha464I	CTTAAG	1 cut(s)	1154
VpaK11BI	GGWCC	1 cut(s)	1224
XagI	CCTNNNNNAGG	1 cut(s)	1396
XapI	RAATTY	5 cut(s)	116, 738, 1018, 1374, 1383
XceI	RCATGY	3 cut(s)	385, 1165, 1370
XmaJI	CCTAGG	1 cut(s)	1114
XspI	CTAG	1 cut(s)	1115
ZraI	GACGTC	1 cut(s)	369

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