Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0011399

Physical Location & Seq

Genomic Coordinates Reverse (-)

4824524 .. 4827075

Gene Structure 2552 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010857

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1386 bp

ATGGCTTCACTCAGCGAAGAAACCGCGAAGAAAGTTCTTCGACAGGTTGAGTTCTACTTCAGCGATAGCAATCTTCCGAGAGACGATTTTCTGAAGAAATCTATAAGCGAAGGCGAGGATGGGATGATTAGCTTGGCTTTGATATGCTCGTTTAGTCGGATGAGAGGTCATCTCAGTTTGGGGGATTTGAAGGCCGACGCTATCCCTGAAGATAGCGTTAAAGCTGTTGCTGAAACTCTTAGAAAATCTACCACTCTCAAGATTTCCGAAGACGGGCAAAAGGTTGGTAGGGCTACAGAAATCTTGAAGCCGGAGGAGGTTATTGAGCAAGTAGACATTAGAACAGTAGCTGCTGCACCGCTTGAGTTTGATGTGAAGCTTGAGGATGTTGAAACCTTTTTCGGACAATTTGGCAAGGTTAACAGCGTGAGGCTGCCTCGTCATGTTGCAGATAAAAAGTTGTTCTGTGGGACTGCGTTGGTTGAGTTTTCAACAGAGGAAGATGCCAATAAGATTCTGAAGGAAACTCTGAACTATGGAGGTGTTCAGCTAGAACTAAAACCAAAGAAGGAATTTGACACTGAAAGAGCAAAAGAGACGGAGGAATATGAGAAGACTCGACCCCTCACAAATTCAAATCGCAAGAATAACGCAAAACCAGAGGCAGACTACCCTAAAGGCTTGATTGTTGCGTTTAAGCTAAAGAGCTCATCAGATAAAGATTCTGCTGAGCATAACGGTACTCCTGAAGATACAAAAAAGGTGGCAGGAGATGTTAACACGGAGGATGCTGAGAAGGATAATAAGGAAAATGTTGATGAGAAAAATAGTTTGGATGGTGAAGAAGAGAAAACTGAAGATGGGGAAAAGCCTTCTGAAGAAGGAAAGGGTGGAGAGAAGGAAGAAAGACTTAATGCTGTAGAAACTTACAAAGATAACATGGACGTTGTTATGCGTGAGGATTTGAAGACCCTCTTTGGGAAGTTTGGCACCGTAAAGTACATTGACTTCAAGATTGGAGAAGAATCGGGATTCGTTCGGTTTGAAGAACCTGAAGCAGCTCACAAAGCACGTGCCGCTGCAGTCCTTACCGAGCTAGGAGGTCTTGTTGTGAAAAATTTCATTGCTACTCTGGAACCAGCGAGGCCGAGAAGGAGTACTGGAAGAATTTTCGCGGTAGTCAAGAAAAATTCCGCGAAAGTAAGGGCGGCCATCGTGGAAGGGGAGGCAAACACCATAGGGGTGGTTACAAACATGGCCGTTCAAGGGATGATAATGATGGAGGTCGCCCAAACAAACACCGGAAGTTTTGAGCTCATGAATCTCAATCCTGTTTCAGGGATCAATTTTGTGCAATACCTGATTCTAGGCGAATCAGCTTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000049 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0030312 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071944 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko05322 map05322

Pfam Domains

Protein Families

La RRM_1 RRM_3

Protein Analysis

462

Amino Acids

51.02

Weight (kDa)

5.04

Isoelectric Point (pI)

30.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
La	PF05383	13 - 57	3.3e-18	La domain
RRM_1	PF00076	121 - 175	2.4e-09	RNA recognition motif
RRM_3	PF08777	317 - 379	2e-11	RNA binding motif
RRM_1	PF00076	319 - 368	7.9e-07	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0011399)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32720 AT4G32720
fragaria_vesca	FvH4_2g36050 FvH4_2g36050
malus_domestica	MD08G1117800.v1.1 MD15G1097300.v1.1
prunus_persica	Prupe.1G452100_v2.0.a1
pyrus_communis	pycom08g09840 pycom15g08920
rosa_chinensis	RchiOBHm_Chr6g0305801
rosa_laevigata	RLG00000010857
rosa_multiflora	Rmu_sc0001809.1_g000040 Rmu_sc0041759.1_g000001
rosa_roxburghii	Rroxscaffold_7G00162320
rosa_rugosa	Rorug06G0344000
rosa_samantha	Rh6AG455700 Rh6BG445400 Rh6CG469700 Rh6DG456400
rosa_wichuraiana	Rw6G039760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	989
AccI	GTMKAC	1 cut(s)	333
AccII	CGCG	3 cut(s)	26, 1175, 1196
AciI	CCGC	6 cut(s)	24, 359, 1077, 1175, 1194, 1208
AclWI	GGATC	1 cut(s)	1349
AcoI	YGGCCR	2 cut(s)	1209, 1257
AcsI	RAATTY	5 cut(s)	572, 631, 1117, 1167, 1189
AcuI	CTGAAG	8 cut(s)	43, 113, 228, 539, 768, 876, 897, 1074
AcvI	CACGTG	1 cut(s)	1073
AfaI	GTAC	3 cut(s)	742, 1001, 1159
AfiI	CCNNNNNNNGG	4 cut(s)	273, 978, 1266, 1337
AgsI	TTSAA	9 cut(s)	190, 307, 392, 492, 636, 967, 1012, 1046, 1265
AjuI	GAANNNNNNNTTGG	2 cut(s)	815, 847
Alw21I	GWGCWC	2 cut(s)	710, 1317
Alw26I	GTCTC	2 cut(s)	75, 590
AlwI	GGATC	1 cut(s)	1349
AlwNI	CAGNNNCTG	1 cut(s)	350
AoxI	GGCC	4 cut(s)	192, 1145, 1209, 1257
ApeKI	GCWGC	5 cut(s)	350, 353, 433, 1058, 1079
ApoI	RAATTY	5 cut(s)	572, 631, 1117, 1167, 1189
Asp700I	GAANNNNTTC	1 cut(s)	1118
AsuHPI	GGTGA	1 cut(s)	851
BanI	GGYRCC	1 cut(s)	989
BanII	GRGCYC	2 cut(s)	710, 1317
BarI	GAAGNNNNNNTAC	2 cut(s)	992, 1024
BbrPI	CACGTG	1 cut(s)	1073
BbsI	GAAGAC	3 cut(s)	276, 620, 974
Bbv12I	GWGCWC	2 cut(s)	710, 1317
BbvI	GCAGC	5 cut(s)	337, 340, 420, 1066, 1070
BccI	CCATC	5 cut(s)	113, 830, 854, 1220, 1273
BceAI	ACGGC	1 cut(s)	1244
BcoDI	GTCTC	2 cut(s)	75, 590
BfaI	CTAG	3 cut(s)	551, 1097, 1367
BfmI	CTRYAG	3 cut(s)	294, 918, 1080
BisI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1209
BlpI	GCTNAGC	1 cut(s)	729
BlsI	GCNGC	7 cut(s)	352, 355, 435, 1060, 1078, 1081, 1210
BmcAI	AGTACT	1 cut(s)	1159
BmiI	GGNNCC	2 cut(s)	991, 1137
BmsI	GCATC	2 cut(s)	493, 778
BpiI	GAAGAC	3 cut(s)	276, 620, 974
BplI	GAGNNNNNCTC	4 cut(s)	156, 188, 421, 453
Bpu1102I	GCTNAGC	1 cut(s)	729
BpuEI	CTTGAG	3 cut(s)	242, 383, 401
BsaAI	YACGTR	1 cut(s)	1073
BsaBI	GATNNNNATC	1 cut(s)	69
BsaWI	WCCGGW	1 cut(s)	1301
BsaXI	ACNNNNNCTCC	2 cut(s)	1092, 1122
Bsc4I	CCNNNNNNNGG	4 cut(s)	273, 978, 1266, 1337
Bse1I	ACTGG	1 cut(s)	1165
Bse3DI	GCAATG	1 cut(s)	1122
Bse8I	GATNNNNATC	1 cut(s)	69
BseGI	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1275
BseJI	GATNNNNATC	1 cut(s)	69
BseLI	CCNNNNNNNGG	4 cut(s)	273, 978, 1266, 1337
BseMI	GCAATG	1 cut(s)	1122
BseMII	CTCAG	4 cut(s)	25, 187, 720, 783
BseNI	ACTGG	1 cut(s)	1165
BseRI	GAGGAG	1 cut(s)	329
BseXI	GCAGC	5 cut(s)	337, 340, 420, 1066, 1070
BsgI	GTGCAG	1 cut(s)	339
Bsh1236I	CGCG	3 cut(s)	26, 1175, 1196
BshFI	GGCC	4 cut(s)	194, 1147, 1211, 1259
BshNI	GGYRCC	1 cut(s)	989
BsiHKAI	GWGCWC	2 cut(s)	710, 1317
BsiSI	CCGG	2 cut(s)	311, 1302
BslFI	GGGAC	1 cut(s)	484
BslI	CCNNNNNNNGG	4 cut(s)	273, 978, 1266, 1337
BsmAI	GTCTC	2 cut(s)	75, 590
BsmBI	CGTCTC	2 cut(s)	75, 590
BsmFI	GGGAC	1 cut(s)	484
BsnI	GGCC	4 cut(s)	194, 1147, 1211, 1259
Bsp1286I	GDGCHC	2 cut(s)	710, 1317
Bsp143I	GATC	1 cut(s)	1341
Bsp1720I	GCTNAGC	1 cut(s)	729
BspACI	CCGC	6 cut(s)	24, 359, 1077, 1175, 1194, 1208
BspANI	GGCC	4 cut(s)	194, 1147, 1211, 1259
BspCNI	CTCAG	4 cut(s)	24, 186, 721, 784
BspFNI	CGCG	3 cut(s)	26, 1175, 1196
BspHI	TCATGA	1 cut(s)	1317
BspLI	GGNNCC	2 cut(s)	991, 1137
BspMAI	CTGCAG	1 cut(s)	1084
BspPI	GGATC	1 cut(s)	1349
BspT107I	GGYRCC	1 cut(s)	989
BsrDI	GCAATG	1 cut(s)	1122
BsrI	ACTGG	1 cut(s)	1165
BssMI	GATC	1 cut(s)	1341
Bst4CI	ACNGT	3 cut(s)	346, 740, 994
Bst6I	CTCTTC	1 cut(s)	840
BstBAI	YACGTR	1 cut(s)	1073
BstDEI	CTNAG	5 cut(s)	11, 173, 239, 729, 792
BstENI	CCTNNNNNAGG	1 cut(s)	1335
BstF5I	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1275
BstFNI	CGCG	3 cut(s)	26, 1175, 1196
BstKTI	GATC	1 cut(s)	1344
BstMAI	GTCTC	2 cut(s)	75, 590
BstMBI	GATC	1 cut(s)	1341
BstMWI	GCNNNNNNNGC	2 cut(s)	1067, 1076
BstSFI	CTRYAG	3 cut(s)	294, 918, 1080
BstUI	CGCG	3 cut(s)	26, 1175, 1196
BstV1I	GCAGC	5 cut(s)	337, 340, 420, 1066, 1070
BstV2I	GAAGAC	3 cut(s)	276, 620, 974
BstXI	CCANNNNNNTGG	1 cut(s)	1243
BsuRI	GGCC	4 cut(s)	194, 1147, 1211, 1259
BtsCI	GGATG	7 cut(s)	124, 129, 165, 391, 793, 841, 1275
BtsIMutI	CAGTG	1 cut(s)	579
CaiI	CAGNNNCTG	1 cut(s)	350
CciI	TCATGA	1 cut(s)	1317
CseI	GACGC	1 cut(s)	206
Csp6I	GTAC	3 cut(s)	741, 1000, 1158
CspCI	CAANNNNNGTGG	2 cut(s)	744, 779
CviAII	CATG	4 cut(s)	443, 940, 1255, 1318
CviQI	GTAC	3 cut(s)	741, 1000, 1158
DdeI	CTNAG	5 cut(s)	11, 173, 239, 729, 792
DpnI	GATC	1 cut(s)	1343
DpnII	GATC	1 cut(s)	1341
EaeI	YGGCCR	2 cut(s)	1209, 1257
Eam1104I	CTCTTC	1 cut(s)	840
EarI	CTCTTC	1 cut(s)	840
Ecl136II	GAGCTC	2 cut(s)	708, 1315
Eco24I	GRGCYC	2 cut(s)	710, 1317
Eco53kI	GAGCTC	2 cut(s)	708, 1315
Eco57I	CTGAAG	8 cut(s)	43, 113, 228, 539, 768, 876, 897, 1074
Eco72I	CACGTG	1 cut(s)	1073
EcoICRI	GAGCTC	2 cut(s)	708, 1315
EcoNI	CCTNNNNNAGG	1 cut(s)	1335
EcoT38I	GRGCYC	2 cut(s)	710, 1317
Esp3I	CGTCTC	2 cut(s)	75, 590
FaeI	CATG	4 cut(s)	446, 943, 1258, 1321
FalI	AAGNNNNNCTT	4 cut(s)	894, 926, 959, 991
FaqI	GGGAC	1 cut(s)	484
FatI	CATG	4 cut(s)	442, 939, 1254, 1317
FblI	GTMKAC	1 cut(s)	333
Fnu4HI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1209
FokI	GGATG	7 cut(s)	131, 136, 172, 398, 800, 848, 1282
FriOI	GRGCYC	2 cut(s)	710, 1317
Fsp4HI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1209
FspBI	CTAG	3 cut(s)	551, 1097, 1367
GluI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1209
HaeIII	GGCC	4 cut(s)	194, 1147, 1211, 1259
HapII	CCGG	2 cut(s)	311, 1302
HgaI	GACGC	1 cut(s)	206
Hin1II	CATG	4 cut(s)	446, 943, 1258, 1321
HincII	GTYRAC	2 cut(s)	421, 778
HindII	GTYRAC	2 cut(s)	421, 778
HindIII	AAGCTT	1 cut(s)	377
HinfI	GANTC	8 cut(s)	514, 616, 722, 1025, 1032, 1321, 1363, 1373
HpaI	GTTAAC	2 cut(s)	421, 778
HpaII	CCGG	2 cut(s)	311, 1302
HphI	GGTGA	1 cut(s)	851
Hpy166II	GTNNAC	3 cut(s)	334, 421, 778
Hpy188I	TCNGA	9 cut(s)	78, 93, 159, 268, 404, 519, 531, 715, 877
Hpy188III	TCNNGA	8 cut(s)	259, 304, 746, 1012, 1029, 1133, 1183, 1318
Hpy8I	GTNNAC	3 cut(s)	334, 421, 778
Hpy99I	CGWCG	1 cut(s)	200
HpyCH4III	ACNGT	3 cut(s)	346, 740, 994
HpyCH4IV	ACGT	2 cut(s)	945, 1072
HpyCH4V	TGCA	4 cut(s)	356, 449, 1082, 1354
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1067, 1076
HpyF3I	CTNAG	5 cut(s)	11, 173, 239, 729, 792
HpySE526I	ACGT	2 cut(s)	945, 1072
Hsp92II	CATG	4 cut(s)	446, 943, 1258, 1321
KspAI	GTTAAC	2 cut(s)	421, 778
Kzo9I	GATC	1 cut(s)	1341
Lsp1109I	GCAGC	5 cut(s)	337, 340, 420, 1066, 1070
LweI	GCATC	2 cut(s)	493, 778
MaeI	CTAG	3 cut(s)	551, 1097, 1367
MaeII	ACGT	2 cut(s)	945, 1072
MaeIII	GTNAC	1 cut(s)	1246
MalI	GATC	1 cut(s)	1343
MboI	GATC	1 cut(s)	1341
MhlI	GDGCHC	2 cut(s)	710, 1317
MluCI	AATT	7 cut(s)	407, 572, 631, 1117, 1167, 1189, 1345
MlyI	GAGTC	1 cut(s)	610
MmeI	TCCRAC	1 cut(s)	137
MroXI	GAANNNNTTC	1 cut(s)	1118
MseI	TTAA	5 cut(s)	219, 420, 696, 777, 912
MslI	CAYNNNNRTG	1 cut(s)	1241
MspA1I	CMGCKG	1 cut(s)	1079
MspI	CCGG	2 cut(s)	311, 1302
MvnI	CGCG	3 cut(s)	26, 1175, 1196
MwoI	GCNNNNNNNGC	2 cut(s)	1067, 1076
NdeII	GATC	1 cut(s)	1341
NlaIII	CATG	4 cut(s)	446, 943, 1258, 1321
NlaIV	GGNNCC	2 cut(s)	991, 1137
NmeAIII	GCCGAG	1 cut(s)	1173
PagI	TCATGA	1 cut(s)	1317
PdmI	GAANNNNTTC	1 cut(s)	1118
PfeI	GAWTC	7 cut(s)	514, 722, 1025, 1032, 1321, 1363, 1373
PkrI	GCNGC	7 cut(s)	352, 355, 435, 1060, 1078, 1081, 1210
PleI	GAGTC	1 cut(s)	610
PmaCI	CACGTG	1 cut(s)	1073
PmlI	CACGTG	1 cut(s)	1073
PpsI	GAGTC	1 cut(s)	610
Ppu21I	YACGTR	1 cut(s)	1073
Psp124BI	GAGCTC	2 cut(s)	710, 1317
PspCI	CACGTG	1 cut(s)	1073
PspN4I	GGNNCC	2 cut(s)	991, 1137
PstI	CTGCAG	1 cut(s)	1084
PstNI	CAGNNNCTG	1 cut(s)	350
RsaI	GTAC	3 cut(s)	742, 1001, 1159
RsaNI	GTAC	3 cut(s)	741, 1000, 1158
RseI	CAYNNNNRTG	1 cut(s)	1241
SacI	GAGCTC	2 cut(s)	710, 1317
SaqAI	TTAA	5 cut(s)	219, 420, 696, 777, 912
SatI	GCNGC	7 cut(s)	351, 354, 434, 1059, 1077, 1080, 1209
Sau3AI	GATC	1 cut(s)	1341
ScaI	AGTACT	1 cut(s)	1159
SchI	GAGTC	1 cut(s)	610
SduI	GDGCHC	2 cut(s)	710, 1317
SfaNI	GCATC	2 cut(s)	493, 778
SfcI	CTRYAG	3 cut(s)	294, 918, 1080
SmiMI	CAYNNNNRTG	1 cut(s)	1241
SmlI	CTYRAG	3 cut(s)	257, 362, 380
SmoI	CTYRAG	3 cut(s)	257, 362, 380
Sse9I	AATT	7 cut(s)	407, 572, 631, 1117, 1167, 1189, 1345
SsiI	CCGC	6 cut(s)	24, 359, 1077, 1175, 1194, 1208
SspMI	CTAG	3 cut(s)	551, 1097, 1367
SstI	GAGCTC	2 cut(s)	710, 1317
TaaI	ACNGT	3 cut(s)	346, 740, 994
TaiI	ACGT	2 cut(s)	948, 1075
TaqI	TCGA	2 cut(s)	40, 619
TasI	AATT	7 cut(s)	407, 572, 631, 1117, 1167, 1189, 1345
TatI	WGTACW	2 cut(s)	999, 1157
TauI	GCSGC	2 cut(s)	1079, 1211
TfiI	GAWTC	7 cut(s)	514, 722, 1025, 1032, 1321, 1363, 1373
Tru1I	TTAA	5 cut(s)	219, 420, 696, 777, 912
Tru9I	TTAA	5 cut(s)	219, 420, 696, 777, 912
TscAI	CASTG	1 cut(s)	586
TseI	GCWGC	5 cut(s)	350, 353, 433, 1058, 1079
TspDTI	ATGAA	2 cut(s)	1111, 1334
TspGWI	ACGGA	2 cut(s)	614, 797
TspRI	CASTG	1 cut(s)	586
XagI	CCTNNNNNAGG	1 cut(s)	1335
XapI	RAATTY	5 cut(s)	572, 631, 1117, 1167, 1189
XmiI	GTMKAC	1 cut(s)	333
XmnI	GAANNNNTTC	1 cut(s)	1118
XspI	CTAG	3 cut(s)	551, 1097, 1367
ZrmI	AGTACT	1 cut(s)	1159

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