Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0007651

Physical Location & Seq

Genomic Coordinates Reverse (-)

40545090 .. 40555189

Gene Structure 10100 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG226400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1404 bp

ATGGGTTCAGCCTTTATTAATTCTACAGAAAGATTGTCTGCCAATTTGGAATTATTATTTTATTCGTTTTGGATCCAAGGATATACTACTTTTAATTCTTGCATATTCTGTTGCGACATGTTATTGTCGTTTGTTCATATTTTGCAATATAATAGAACTTTTTTTGTCAATTTTCTCTTTCTGTGTTGCAGAAGATATAAAGAAAAAAAGGAAGAAGTGACAGAACCAGAGGCTGATCCTGAAAGAGATCAGAGGACAGTATTTGCTTATCAGATTTGTCTGAAGGCAGACGAAAGAGATGTATATGATTTCTTCTCACGAGCCGGCAAGGTCCGCGATGTACGTCTCATTATGGATCGTAACTCAAGACGGTCCAAGGGAGTTGGGTATATCGAGTTCTATGATGCGATGTCAGTACCTATGGCTATTGCACTCTCTGGTCAACCACTTCGAGGTCAACCAGTGATGGTGAAGCCATCAGAGGCTGAGAAGAATCTGGTTCAGTCAACTTCTGTGGTTACTGGAGCTGGTGGGATGATAGGTCCATATTCTGGTGGAGCTAGACGGCTGTATGTTGGCAATCTACACACCAACATAAAAGAAGATGATCTACGCCAGGTTTTTGGAGCATTTGGTGCTGTAGAACTGGTTCAGTTGCCTCTTGACGAAACTAACAACTGCAAAGGTTTTGGATTTGTTCAGTTTCAACGGCTTGAAGATGCTAGAAATGCACTGAGTTTGAATGGCCAATTGGAGATTGCTGGTCGAGTAATTAAGGTATCAGCTGTGACTGACCAGGCTGGAATGCAAGATGTTGGAGCAAATGCTGGTGATTTTGATGACGATGAAGGTGGTGGCTTGTCATTGAATGCCCGGTCACGAGCAATTCTTATGCAGAAACTGGATCGTAGTGGCAGTGGATCAAGTCTTGCTGTCAATAGCACTGGTCTACCAGTGGCACTTCCAGCGGCACCAATCCTGGGAGCTGCACCAGGAGTTTCTTCTCTTGGTACTCCCATGGCCTCTGTTCCTGGTCTTGCTGGACTTGGTGTTCCGGGTCTTCAAATTCCTACAGCTACTGTTCCTTCTGTAGATACAATTGGTGTTCCAAGCGAATGTTTACTGTTGACAAATATGTTTGATCCTAAAGAAATTGAGGCTGAACCAGATATTGATGTGGACATTAAAGAAGATGTTCAGGAGGAATGTTCAAAATACGGGAAGCTGAAACATATTTTTGTTGATAAGAATACCGCTGGTTTTGTGTACTTGAGATTTGAGAACACACAAGCTGCAATAAATGCTCGACAAGTTCTCCATGGAAGATGGTTTGCTGGGAAGATGATCACAGCGACTTTCATGTTGCCTCAGACCTATGAGACTAAATTCCCTGAGAGCCGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RBM39linker RRM_1

Protein Analysis

467

Amino Acids

51.21

Weight (kDa)

5.32

Isoelectric Point (pI)

44.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	96 - 155	1.2e-09	RNA recognition motif
RRM_1	PF00076	190 - 259	1.5e-19	RNA recognition motif
RBM39linker	PF15519	279 - 384	1.3e-15	linker between RRM2 and RRM3 domains in RBM39 protein

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: OG0007651)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G16940 AT2G16940 AT2G16940 AT2G16940 AT2G16940
fragaria_vesca	FvH4_2g15540
malus_domestica	MD05G1123800.v1.1 MD10G1126500.v1.1
prunus_persica	Prupe.8G167600_v2.0.a1 Prupe.8G167800_v2.0.a1 Prupe.8G167800_v2.0.a1 Prupe.8G167800_v2.0.a1
pyrus_communis	pycom05g11800
rosa_chinensis	RchiOBHm_Chr6g0278711
rosa_laevigata	RLG00000013199
rosa_multiflora	Rmu_sc0000531.1_g000006
rosa_roxburghii	Rroxscaffold_7G00189690 Rroxscaffold_7G00189950
rosa_rugosa	Rorug06G0118400
rosa_samantha	Rh6AG227200 Rh6BG232600 Rh6CG234800 Rh6DG226400
rosa_wichuraiana	Rw6G019930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	970
AccB7I	CCANNNNNTGG	1 cut(s)	551
AccI	GTMKAC	1 cut(s)	949
AccII	CGCG	1 cut(s)	336
AciI	CCGC	3 cut(s)	334, 968, 1254
AclWI	GGATC	7 cut(s)	67, 80, 230, 363, 912, 928, 1136
AcoI	YGGCCR	1 cut(s)	745
AcsI	RAATTY	2 cut(s)	1065, 1385
AcuI	CTGAAG	1 cut(s)	302
AfaI	GTAC	4 cut(s)	342, 417, 1012, 1268
AfiI	CCNNNNNNNGG	3 cut(s)	452, 551, 980
AflIII	ACRYGT	1 cut(s)	117
AgsI	TTSAA	6 cut(s)	707, 716, 742, 868, 1064, 1212
AjnI	CCWGG	5 cut(s)	615, 795, 978, 991, 1030
AjuI	GAANNNNNNNTTGG	2 cut(s)	734, 766
AloI	GAACNNNNNNTCC	2 cut(s)	1035, 1067
AluBI	AGCT	7 cut(s)	527, 560, 785, 986, 1076, 1225, 1292
AluI	AGCT	7 cut(s)	527, 560, 785, 986, 1076, 1225, 1292
Alw26I	GTCTC	2 cut(s)	350, 1373
AlwI	GGATC	7 cut(s)	67, 80, 230, 363, 912, 928, 1136
AlwNI	CAGNNNCTG	4 cut(s)	233, 485, 901, 1079
AoxI	GGCC	2 cut(s)	745, 1020
ApeKI	GCWGC	2 cut(s)	986, 1292
ApoI	RAATTY	2 cut(s)	1065, 1385
AseI	ATTAAT	1 cut(s)	18
Asp700I	GAANNNNTTC	2 cut(s)	648, 1194
AspS9I	GGNCC	3 cut(s)	331, 372, 542
AsuC2I	CCSGG	2 cut(s)	874, 1056
AsuHPI	GGTGA	2 cut(s)	481, 842
AvaII	GGWCC	3 cut(s)	331, 372, 542
BalI	TGGCCA	1 cut(s)	747
BamHI	GGATCC	1 cut(s)	72
BanI	GGYRCC	1 cut(s)	970
BarI	GAAGNNNNNNTAC	2 cut(s)	594, 626
BauI	CACGAG	2 cut(s)	318, 879
BbsI	GAAGAC	1 cut(s)	1052
BbvI	GCAGC	2 cut(s)	973, 1279
BccI	CCATC	3 cut(s)	460, 484, 1320
BceAI	ACGGC	2 cut(s)	581, 725
BciT130I	CCWGG	5 cut(s)	617, 797, 980, 993, 1032
BclI	TGATCA	1 cut(s)	1344
BcnI	CCSGG	2 cut(s)	874, 1056
BcoDI	GTCTC	2 cut(s)	350, 1373
BfaI	CTAG	2 cut(s)	561, 723
BfmI	CTRYAG	4 cut(s)	24, 639, 1071, 1089
BisI	GCNGC	3 cut(s)	969, 987, 1293
BlsI	GCNGC	3 cut(s)	970, 988, 1294
Bme1390I	CCNGG	7 cut(s)	617, 797, 874, 980, 993, 1032, 1056
Bme18I	GGWCC	3 cut(s)	331, 372, 542
BmgT120I	GGNCC	3 cut(s)	331, 372, 542
BmiI	GGNNCC	2 cut(s)	74, 972
BmrFI	CCNGG	7 cut(s)	617, 797, 874, 980, 993, 1032, 1056
BmsI	GCATC	2 cut(s)	394, 709
BpiI	GAAGAC	1 cut(s)	1052
BpmI	CTGGAG	1 cut(s)	543
BpuEI	CTTGAG	2 cut(s)	349, 1291
BpuMI	CCSGG	2 cut(s)	874, 1056
BsaJI	CCNNGG	5 cut(s)	76, 375, 979, 1017, 1318
BsaXI	ACNNNNNCTCC	2 cut(s)	1299, 1329
Bsc4I	CCNNNNNNNGG	3 cut(s)	452, 551, 980
Bse118I	RCCGGY	2 cut(s)	323, 1398
Bse1I	ACTGG	6 cut(s)	461, 526, 651, 906, 949, 953
BseBI	CCWGG	5 cut(s)	617, 797, 980, 993, 1032
BseDI	CCNNGG	5 cut(s)	76, 375, 979, 1017, 1318
BseGI	GGATG	1 cut(s)	540
BseLI	CCNNNNNNNGG	3 cut(s)	452, 551, 980
BseMII	CTCAG	4 cut(s)	477, 725, 1382, 1383
BseNI	ACTGG	6 cut(s)	461, 526, 651, 906, 949, 953
BseXI	GCAGC	2 cut(s)	973, 1279
BseYI	CCCAGC	1 cut(s)	1334
BsgI	GTGCAG	1 cut(s)	972
Bsh1236I	CGCG	1 cut(s)	336
BshFI	GGCC	2 cut(s)	747, 1022
BshNI	GGYRCC	1 cut(s)	970
BsiSI	CCGG	4 cut(s)	324, 874, 1055, 1399
BslI	CCNNNNNNNGG	3 cut(s)	452, 551, 980
BsmAI	GTCTC	2 cut(s)	350, 1373
BsmBI	CGTCTC	1 cut(s)	350
BsmI	GAATGC	2 cut(s)	810, 874
BsnI	GGCC	2 cut(s)	747, 1022
Bsp143I	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
Bsp19I	CCATGG	2 cut(s)	1017, 1318
BspACI	CCGC	3 cut(s)	334, 968, 1254
BspANI	GGCC	2 cut(s)	747, 1022
BspCNI	CTCAG	4 cut(s)	478, 726, 1381, 1384
BspFNI	CGCG	1 cut(s)	336
BspLI	GGNNCC	2 cut(s)	74, 972
BspPI	GGATC	7 cut(s)	67, 80, 230, 363, 912, 928, 1136
BspT107I	GGYRCC	1 cut(s)	970
BsrFI	RCCGGY	2 cut(s)	323, 1398
BsrI	ACTGG	6 cut(s)	461, 526, 651, 906, 949, 953
BssAI	RCCGGY	2 cut(s)	323, 1398
BssECI	CCNNGG	5 cut(s)	76, 375, 979, 1017, 1318
BssMI	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
BssSI	CACGAG	2 cut(s)	318, 879
BssT1I	CCWWGG	4 cut(s)	76, 375, 1017, 1318
Bst2BI	CACGAG	2 cut(s)	318, 879
Bst2UI	CCWGG	5 cut(s)	617, 797, 980, 993, 1032
Bst4CI	ACNGT	4 cut(s)	259, 372, 1081, 1125
BstAPI	GCANNNNNTGC	2 cut(s)	635, 1301
BstC8I	GCNNGC	1 cut(s)	325
BstDEI	CTNAG	4 cut(s)	486, 734, 1368, 1392
BstDSI	CCRYGG	2 cut(s)	1017, 1318
BstF5I	GGATG	1 cut(s)	540
BstFNI	CGCG	1 cut(s)	336
BstKTI	GATC	9 cut(s)	75, 238, 250, 358, 610, 907, 923, 1144, 1347
BstMAI	GTCTC	2 cut(s)	350, 1373
BstMBI	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
BstMWI	GCNNNNNNNGC	5 cut(s)	333, 635, 728, 965, 1301
BstNI	CCWGG	5 cut(s)	617, 797, 980, 993, 1032
BstNSI	RCATGY	1 cut(s)	121
BstSCI	CCNGG	7 cut(s)	615, 795, 872, 978, 991, 1030, 1054
BstSFI	CTRYAG	4 cut(s)	24, 639, 1071, 1089
BstUI	CGCG	1 cut(s)	336
BstV1I	GCAGC	2 cut(s)	973, 1279
BstV2I	GAAGAC	1 cut(s)	1052
BstX2I	RGATCY	1 cut(s)	72
BstXI	CCANNNNNNTGG	1 cut(s)	623
BstYI	RGATCY	1 cut(s)	72
BsuRI	GGCC	2 cut(s)	747, 1022
BtgI	CCRYGG	2 cut(s)	1017, 1318
BtgZI	GCGATG	2 cut(s)	351, 422
BtsCI	GGATG	1 cut(s)	540
BtsI	GCAGTG	1 cut(s)	922
BtsIMutI	CAGTG	5 cut(s)	468, 731, 922, 942, 960
Cac8I	GCNNGC	1 cut(s)	325
CaiI	CAGNNNCTG	4 cut(s)	233, 485, 901, 1079
Cfr10I	RCCGGY	2 cut(s)	323, 1398
Cfr13I	GGNCC	3 cut(s)	331, 372, 542
Csp6I	GTAC	4 cut(s)	341, 416, 1011, 1267
CspCI	CAANNNNNGTGG	2 cut(s)	495, 530
CviAII	CATG	4 cut(s)	118, 1018, 1319, 1360
CviQI	GTAC	4 cut(s)	341, 416, 1011, 1267
DdeI	CTNAG	4 cut(s)	486, 734, 1368, 1392
DpnI	GATC	9 cut(s)	74, 237, 249, 357, 609, 906, 922, 1143, 1346
DpnII	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
EaeI	YGGCCR	1 cut(s)	745
Eco130I	CCWWGG	4 cut(s)	76, 375, 1017, 1318
Eco47I	GGWCC	3 cut(s)	331, 372, 542
Eco57I	CTGAAG	1 cut(s)	302
EcoRII	CCWGG	5 cut(s)	615, 795, 978, 991, 1030
EcoT14I	CCWWGG	4 cut(s)	76, 375, 1017, 1318
ErhI	CCWWGG	4 cut(s)	76, 375, 1017, 1318
Esp3I	CGTCTC	1 cut(s)	350
FaeI	CATG	4 cut(s)	121, 1021, 1322, 1363
FatI	CATG	4 cut(s)	117, 1017, 1318, 1359
FbaI	TGATCA	1 cut(s)	1344
FblI	GTMKAC	1 cut(s)	949
Fnu4HI	GCNGC	3 cut(s)	969, 987, 1293
FokI	GGATG	1 cut(s)	547
Fsp4HI	GCNGC	3 cut(s)	969, 987, 1293
FspBI	CTAG	2 cut(s)	561, 723
GluI	GCNGC	3 cut(s)	969, 987, 1293
GsaI	CCCAGC	1 cut(s)	1338
GsuI	CTGGAG	1 cut(s)	543
HaeIII	GGCC	2 cut(s)	747, 1022
HapII	CCGG	4 cut(s)	324, 874, 1055, 1399
Hin1II	CATG	4 cut(s)	121, 1021, 1322, 1363
HincII	GTYRAC	4 cut(s)	443, 458, 507, 1128
HindII	GTYRAC	4 cut(s)	443, 458, 507, 1128
HinfI	GANTC	1 cut(s)	493
HpaII	CCGG	4 cut(s)	324, 874, 1055, 1399
HphI	GGTGA	2 cut(s)	481, 842
Hpy166II	GTNNAC	8 cut(s)	443, 458, 507, 950, 1121, 1128, 1180, 1267
Hpy188I	TCNGA	5 cut(s)	252, 273, 282, 481, 1371
Hpy188III	TCNNGA	6 cut(s)	239, 318, 366, 662, 879, 1199
Hpy8I	GTNNAC	8 cut(s)	443, 458, 507, 950, 1121, 1128, 1180, 1267
HpyAV	CCTTC	3 cut(s)	277, 842, 1095
HpyCH4III	ACNGT	4 cut(s)	259, 372, 1081, 1125
HpyCH4IV	ACGT	1 cut(s)	343
HpyF10VI	GCNNNNNNNGC	5 cut(s)	333, 635, 728, 965, 1301
HpyF3I	CTNAG	4 cut(s)	486, 734, 1368, 1392
HpySE526I	ACGT	1 cut(s)	343
Hsp92II	CATG	4 cut(s)	121, 1021, 1322, 1363
KroI	GCCGGC	1 cut(s)	323
KroNI	GCCGGC	1 cut(s)	325
Ksp22I	TGATCA	1 cut(s)	1344
Kzo9I	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
LmnI	GCTCC	5 cut(s)	524, 557, 626, 818, 983
Lsp1109I	GCAGC	2 cut(s)	973, 1279
LweI	GCATC	2 cut(s)	394, 709
MaeI	CTAG	2 cut(s)	561, 723
MaeII	ACGT	1 cut(s)	343
MaeIII	GTNAC	5 cut(s)	217, 359, 517, 787, 876
MalI	GATC	9 cut(s)	74, 237, 249, 357, 609, 906, 922, 1143, 1346
MboI	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
MfeI	CAATTG	2 cut(s)	749, 1098
MflI	RGATCY	1 cut(s)	72
MlsI	TGGCCA	1 cut(s)	747
MluNI	TGGCCA	1 cut(s)	747
MmeI	TCCRAC	1 cut(s)	796
MnlI	CCTC	9 cut(s)	223, 246, 446, 475, 669, 1033, 1150, 1195, 1377
Mox20I	TGGCCA	1 cut(s)	747
MroNI	GCCGGC	1 cut(s)	323
MroXI	GAANNNNTTC	2 cut(s)	648, 1194
MscI	TGGCCA	1 cut(s)	747
MseI	TTAA	4 cut(s)	18, 93, 774, 1185
Msp20I	TGGCCA	1 cut(s)	747
MspA1I	CMGCKG	3 cut(s)	785, 968, 1256
MspI	CCGG	4 cut(s)	324, 874, 1055, 1399
MspR9I	CCNGG	7 cut(s)	617, 797, 874, 980, 993, 1032, 1056
MunI	CAATTG	2 cut(s)	749, 1098
Mva1269I	GAATGC	2 cut(s)	810, 874
MvaI	CCWGG	5 cut(s)	617, 797, 980, 993, 1032
MvnI	CGCG	1 cut(s)	336
MwoI	GCNNNNNNNGC	5 cut(s)	333, 635, 728, 965, 1301
NaeI	GCCGGC	1 cut(s)	325
NciI	CCSGG	2 cut(s)	874, 1056
NcoI	CCATGG	2 cut(s)	1017, 1318
NdeII	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
NgoMIV	GCCGGC	1 cut(s)	323
NlaIII	CATG	4 cut(s)	121, 1021, 1322, 1363
NlaIV	GGNNCC	2 cut(s)	74, 972
NmuCI	GTSAC	3 cut(s)	217, 787, 876
NspI	RCATGY	1 cut(s)	121
PciI	ACATGT	1 cut(s)	117
PctI	GAATGC	2 cut(s)	810, 874
PdiI	GCCGGC	1 cut(s)	325
PdmI	GAANNNNTTC	2 cut(s)	648, 1194
PfeI	GAWTC	1 cut(s)	493
PflMI	CCANNNNNTGG	1 cut(s)	551
PkrI	GCNGC	3 cut(s)	970, 988, 1294
PscI	ACATGT	1 cut(s)	117
PshBI	ATTAAT	1 cut(s)	18
Psp6I	CCWGG	5 cut(s)	615, 795, 978, 991, 1030
PspFI	CCCAGC	1 cut(s)	1334
PspGI	CCWGG	5 cut(s)	615, 795, 978, 991, 1030
PspN4I	GGNNCC	2 cut(s)	74, 972
PspPI	GGNCC	3 cut(s)	331, 372, 542
PsrI	GAACNNNNNNTAC	4 cut(s)	380, 412, 633, 665
PstNI	CAGNNNCTG	4 cut(s)	233, 485, 901, 1079
PsuI	RGATCY	1 cut(s)	72
PvuII	CAGCTG	1 cut(s)	785
RsaI	GTAC	4 cut(s)	342, 417, 1012, 1268
RsaNI	GTAC	4 cut(s)	341, 416, 1011, 1267
SaqAI	TTAA	4 cut(s)	18, 93, 774, 1185
SatI	GCNGC	3 cut(s)	969, 987, 1293
Sau3AI	GATC	9 cut(s)	72, 235, 247, 355, 607, 904, 920, 1141, 1344
Sau96I	GGNCC	3 cut(s)	331, 372, 542
ScrFI	CCNGG	7 cut(s)	617, 797, 874, 980, 993, 1032, 1056
SfaNI	GCATC	2 cut(s)	394, 709
SfcI	CTRYAG	4 cut(s)	24, 639, 1071, 1089
SinI	GGWCC	3 cut(s)	331, 372, 542
SmlI	CTYRAG	2 cut(s)	364, 1270
SmoI	CTYRAG	2 cut(s)	364, 1270
SsiI	CCGC	3 cut(s)	334, 968, 1254
SspMI	CTAG	2 cut(s)	561, 723
StyD4I	CCNGG	7 cut(s)	615, 795, 872, 978, 991, 1030, 1054
StyI	CCWWGG	4 cut(s)	76, 375, 1017, 1318
TaaI	ACNGT	4 cut(s)	259, 372, 1081, 1125
TaiI	ACGT	1 cut(s)	346
TaqI	TCGA	4 cut(s)	393, 451, 766, 1306
TatI	WGTACW	1 cut(s)	1266
TauI	GCSGC	1 cut(s)	971
TfiI	GAWTC	1 cut(s)	493
Tru1I	TTAA	4 cut(s)	18, 93, 774, 1185
Tru9I	TTAA	4 cut(s)	18, 93, 774, 1185
TscAI	CASTG	5 cut(s)	468, 738, 922, 949, 960
TseFI	GTSAC	3 cut(s)	217, 787, 876
TseI	GCWGC	2 cut(s)	986, 1292
Tsp45I	GTSAC	3 cut(s)	217, 787, 876
TspDTI	ATGAA	3 cut(s)	125, 861, 1348
TspRI	CASTG	5 cut(s)	468, 738, 922, 949, 960
Van91I	CCANNNNNTGG	1 cut(s)	551
VpaK11BI	GGWCC	3 cut(s)	331, 372, 542
VspI	ATTAAT	1 cut(s)	18
XapI	RAATTY	2 cut(s)	1065, 1385
XceI	RCATGY	1 cut(s)	121
XmiI	GTMKAC	1 cut(s)	949
XmnI	GAANNNNTTC	2 cut(s)	648, 1194
XspI	CTAG	2 cut(s)	561, 723

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