Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0002496

Physical Location & Seq

Genomic Coordinates Forward (+)

68071165 .. 68075458

Gene Structure 4294 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G041060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGGCTGTTGCTGAGAATGCACCGAGCTTCGATAACTCATCGGAGTCCAATGCTCGGAGCGATCTCGAAAACCCACCAAAACCCAAAATGGACTCGGCTGCTGTGGTGAGTGTGGACCCCAATTTGCAGTCCAATGGTGGTGGTGATGATCAGAACAATTCTGAGCTGAAGAGCCAGGAGGGTTTGTCAGTCCCCAACCACAAGGCTCAAATGGGCCAGATGCAAAATGGGTTCGAGTCCAATGGGGTGGCTGCTGATGACCATCAGATGGTGAAGGCTGGTGGGTATGGGACTGATCAGAGCTCCAATGGGGATGAGAATTTCAAGAGGGATATGAGGGATTTGGAAGAGTTGTTGTCCAAGTTGAATCCCATGGCTCAGGAATTCATACCTCTAAGCCTTGCCAACAACCAAGGGCAAACTCTTCCTGGTGGATTTGGCTACACTAACAATCAGTTGCTGCAGGCCAATTCCGGCAATGGGAATGGATTTATGGGCAAAAGGCAGAAGAAGAATGGCTATAGTAATCAAGCCAGGAGAAGGAACTATTACAAGCTGAGTTTGGCACAGCGAGAGGAGATGATCAGGAGGACTGTGTATGTTTCTGACATTGACCAACAGGTTACTGAAGAGAACCTGGCTGCTCTCTTTATTAATTGCGGACAGGTTGTAGACTGTCGTGTATGTGGTGATCCTAATTCTGTTCTTCGATTTGCTTTTATTGAGTTTACAGATGAAGAAGGTGCAATGGCTGCTTTGAGTCTGTCAGGAACCATGCTTGGCTACTACCCTGTAAGAGTGCTGCCTTCCAAAACTGCAATTGCACCTGTTAACCCAACATTTTTGCCCAGGTCAGATGATGAACGTGAAATGTGCTCAAGAACTATTTATTGTACCAATATTGACAAGAAGGTTACTCAAGCTGATGTCAAACTGTTTTTTGAATCACTTTGTGGAGAGGTTCAACGCCTGAGGCTCCTTGGAGACTATCATCATTCCACTCGTATTTGTTTTGTTGAGTTTACAGTGGCTGAAAGTGCAATTGCAGCTCTTAACTGTAGCGGTGTAGTTTTGGGATCACTGCCTATAAGGGTCAGCCCGTCAAAGACACCTGTCCGCCCCCGTGCTCCTCCTCGCTCTCCATTGCACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 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 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

383

Amino Acids

41.97

Weight (kDa)

5.55

Isoelectric Point (pI)

42.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	199 - 261	8.5e-12	RNA recognition motif
RRM_1	PF00076	296 - 363	6.6e-09	RNA recognition 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: OG0002496)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G32790 AT1G32790 AT4G10610 AT4G10610
fragaria_vesca	FvH4_5g10630 FvH4_5g10630 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841 FvH4_7g32841
malus_domestica	MD01G1227700.v1.1 MD06G1121700.v1.1 MD07G1298200.v1.1 MD14G1138200.v1.1
prunus_persica	Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.2G318100_v2.0.a1 Prupe.5G132400_v2.0.a1
pyrus_communis	pycom01g23600 pycom06g11280 pycom07g27070 pycom14g11330
rosa_chinensis	RchiOBHm_Chr1g0382781 RchiOBHm_Chr7g0187511
rosa_laevigata	RLG00000004775 RLG00000026160
rosa_multiflora	Rmu_sc0003389.1_g000001 Rmu_sc0019127.1_g000002
rosa_roxburghii	Rroxscaffold_3G00267370 Rroxscaffold_4G00277910
rosa_rugosa	Rorug01G0435800 Rorug06G0482100
rosa_samantha	Rh1AG461100 Rh1BG417800 Rh1DG450000 Rh7BG088300 Rh7CG087600 Rh7DG089200
rosa_wichuraiana	Rw1G041060 Rw7G007660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	268
AccI	GTMKAC	1 cut(s)	672
AciI	CCGC	3 cut(s)	660, 1062, 1117
AclWI	GGATC	2 cut(s)	686, 1084
AcsI	RAATTY	2 cut(s)	319, 383
AcuI	CTGAAG	2 cut(s)	188, 648
AdeI	CACNNNGTG	1 cut(s)	953
AfaI	GTAC	1 cut(s)	895
AfiI	CCNNNNNNNGG	4 cut(s)	54, 268, 480, 540
AgsI	TTSAA	4 cut(s)	325, 367, 944, 965
AjnI	CCWGG	5 cut(s)	174, 427, 533, 636, 848
AluBI	AGCT	6 cut(s)	27, 166, 303, 556, 923, 1049
AluI	AGCT	6 cut(s)	27, 166, 303, 556, 923, 1049
Alw21I	GWGCWC	3 cut(s)	305, 878, 1129
Alw26I	GTCTC	1 cut(s)	978
AlwI	GGATC	2 cut(s)	686, 1084
AlwNI	CAGNNNCTG	2 cut(s)	460, 1031
AoxI	GGCC	2 cut(s)	214, 465
ApeKI	GCWGC	7 cut(s)	98, 251, 460, 641, 752, 802, 1046
ApoI	RAATTY	2 cut(s)	319, 383
AseI	ATTAAT	1 cut(s)	654
AspS9I	GGNCC	2 cut(s)	115, 214
AsuHPI	GGTGA	4 cut(s)	118, 155, 283, 701
AvaII	GGWCC	1 cut(s)	115
AxyI	CCTNAGG	1 cut(s)	971
BanII	GRGCYC	1 cut(s)	305
Bbv12I	GWGCWC	3 cut(s)	305, 878, 1129
BbvI	GCAGC	7 cut(s)	85, 238, 447, 628, 739, 789, 1058
BccI	CCATC	2 cut(s)	262, 270
BciT130I	CCWGG	5 cut(s)	176, 429, 535, 638, 850
BclI	TGATCA	3 cut(s)	148, 295, 582
BcoDI	GTCTC	1 cut(s)	978
BfaI	CTAG	1 cut(s)	1150
BfmI	CTRYAG	3 cut(s)	461, 520, 1057
BisI	GCNGC	7 cut(s)	99, 252, 461, 642, 753, 803, 1047
BlsI	GCNGC	7 cut(s)	100, 253, 462, 643, 754, 804, 1048
Bme1390I	CCNGG	5 cut(s)	176, 429, 535, 638, 850
Bme18I	GGWCC	1 cut(s)	115
BmgT120I	GGNCC	2 cut(s)	115, 214
BmiI	GGNNCC	3 cut(s)	117, 772, 977
BmrFI	CCNGG	5 cut(s)	176, 429, 535, 638, 850
BmsI	GCATC	1 cut(s)	210
BoxI	GACNNNNGTC	1 cut(s)	1112
Bpu10I	CCTNAGC	1 cut(s)	378
BpuEI	CTTGAG	2 cut(s)	862, 903
BsaBI	GATNNNNATC	1 cut(s)	261
BsaJI	CCNNGG	4 cut(s)	372, 412, 848, 979
BsaXI	ACNNNNNCTCC	2 cut(s)	170, 200
Bsc4I	CCNNNNNNNGG	4 cut(s)	54, 268, 480, 540
Bse21I	CCTNAGG	1 cut(s)	971
Bse3DI	GCAATG	3 cut(s)	484, 753, 1142
Bse8I	GATNNNNATC	1 cut(s)	261
BseBI	CCWGG	5 cut(s)	176, 429, 535, 638, 850
BseDI	CCNNGG	4 cut(s)	372, 412, 848, 979
BseGI	GGATG	1 cut(s)	319
BseJI	GATNNNNATC	1 cut(s)	261
BseLI	CCNNNNNNNGG	4 cut(s)	54, 268, 480, 540
BseMI	GCAATG	3 cut(s)	484, 753, 1142
BseMII	CTCAG	4 cut(s)	153, 392, 548, 962
BseRI	GAGGAG	3 cut(s)	590, 1119, 1122
BseXI	GCAGC	7 cut(s)	85, 238, 447, 628, 739, 789, 1058
BshFI	GGCC	2 cut(s)	216, 467
BsiHKAI	GWGCWC	3 cut(s)	305, 878, 1129
BsiSI	CCGG	1 cut(s)	474
BslFI	GGGAC	2 cut(s)	176, 304
BslI	CCNNNNNNNGG	4 cut(s)	54, 268, 480, 540
BsmAI	GTCTC	1 cut(s)	978
BsmFI	GGGAC	2 cut(s)	176, 304
BsmI	GAATGC	1 cut(s)	22
BsnI	GGCC	2 cut(s)	216, 467
Bsp1286I	GDGCHC	3 cut(s)	305, 878, 1129
Bsp143I	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
Bsp19I	CCATGG	1 cut(s)	372
BspACI	CCGC	3 cut(s)	660, 1062, 1117
BspANI	GGCC	2 cut(s)	216, 467
BspCNI	CTCAG	5 cut(s)	4, 154, 391, 549, 963
BspLI	GGNNCC	3 cut(s)	117, 772, 977
BspMAI	CTGCAG	1 cut(s)	465
BspPI	GGATC	2 cut(s)	686, 1084
BspQI	GCTCTTC	1 cut(s)	164
BsrDI	GCAATG	3 cut(s)	484, 753, 1142
BssECI	CCNNGG	4 cut(s)	372, 412, 848, 979
BssMI	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
BssT1I	CCWWGG	3 cut(s)	372, 412, 979
Bst2UI	CCWGG	5 cut(s)	176, 429, 535, 638, 850
Bst4CI	ACNGT	5 cut(s)	595, 677, 936, 1027, 1058
Bst6I	CTCTTC	4 cut(s)	164, 342, 429, 624
BstAPI	GCANNNNNTGC	1 cut(s)	752
BstC8I	GCNNGC	1 cut(s)	465
BstDEI	CTNAG	6 cut(s)	12, 162, 378, 395, 557, 971
BstDSI	CCRYGG	1 cut(s)	372
BstF5I	GGATG	1 cut(s)	319
BstKTI	GATC	6 cut(s)	64, 151, 298, 585, 694, 1079
BstMAI	GTCTC	1 cut(s)	978
BstMBI	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
BstMWI	GCNNNNNNNGC	4 cut(s)	17, 752, 1037, 1046
BstNI	CCWGG	5 cut(s)	176, 429, 535, 638, 850
BstPAI	GACNNNNGTC	1 cut(s)	1112
BstSCI	CCNGG	5 cut(s)	174, 427, 533, 636, 848
BstSFI	CTRYAG	3 cut(s)	461, 520, 1057
BstV1I	GCAGC	7 cut(s)	85, 238, 447, 628, 739, 789, 1058
BstXI	CCANNNNNNTGG	1 cut(s)	247
Bsu36I	CCTNAGG	1 cut(s)	971
BsuRI	GGCC	2 cut(s)	216, 467
BtgI	CCRYGG	1 cut(s)	372
BtsCI	GGATG	1 cut(s)	319
BtsI	GCAGTG	1 cut(s)	1079
BtsIMutI	CAGTG	2 cut(s)	1032, 1079
Cac8I	GCNNGC	1 cut(s)	465
CaiI	CAGNNNCTG	2 cut(s)	460, 1031
Cfr13I	GGNCC	2 cut(s)	115, 214
Csp6I	GTAC	1 cut(s)	894
CspCI	CAANNNNNGTGG	2 cut(s)	121, 156
CviAII	CATG	2 cut(s)	373, 775
CviQI	GTAC	1 cut(s)	894
DdeI	CTNAG	6 cut(s)	12, 162, 378, 395, 557, 971
DpnI	GATC	6 cut(s)	63, 150, 297, 584, 693, 1078
DpnII	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
DraIII	CACNNNGTG	1 cut(s)	953
Eam1104I	CTCTTC	4 cut(s)	164, 342, 429, 624
EarI	CTCTTC	4 cut(s)	164, 342, 429, 624
EciI	GGCGGA	1 cut(s)	1106
Ecl136II	GAGCTC	1 cut(s)	303
Eco130I	CCWWGG	3 cut(s)	372, 412, 979
Eco24I	GRGCYC	1 cut(s)	305
Eco47I	GGWCC	1 cut(s)	115
Eco53kI	GAGCTC	1 cut(s)	303
Eco57I	CTGAAG	2 cut(s)	188, 648
Eco81I	CCTNAGG	1 cut(s)	971
EcoICRI	GAGCTC	1 cut(s)	303
EcoRI	GAATTC	1 cut(s)	383
EcoRII	CCWGG	5 cut(s)	174, 427, 533, 636, 848
EcoT14I	CCWWGG	3 cut(s)	372, 412, 979
EcoT38I	GRGCYC	1 cut(s)	305
ErhI	CCWWGG	3 cut(s)	372, 412, 979
FaeI	CATG	2 cut(s)	376, 778
FaqI	GGGAC	2 cut(s)	176, 304
FatI	CATG	2 cut(s)	372, 774
FbaI	TGATCA	3 cut(s)	148, 295, 582
FblI	GTMKAC	1 cut(s)	672
Fnu4HI	GCNGC	7 cut(s)	99, 252, 461, 642, 753, 803, 1047
FokI	GGATG	1 cut(s)	326
FriOI	GRGCYC	1 cut(s)	305
Fsp4HI	GCNGC	7 cut(s)	99, 252, 461, 642, 753, 803, 1047
FspBI	CTAG	1 cut(s)	1150
GluI	GCNGC	7 cut(s)	99, 252, 461, 642, 753, 803, 1047
HaeIII	GGCC	2 cut(s)	216, 467
HapII	CCGG	1 cut(s)	474
Hin1II	CATG	2 cut(s)	376, 778
HincII	GTYRAC	1 cut(s)	832
HindII	GTYRAC	1 cut(s)	832
HinfI	GANTC	6 cut(s)	44, 92, 236, 367, 760, 944
HpaI	GTTAAC	1 cut(s)	832
HpaII	CCGG	1 cut(s)	474
HphI	GGTGA	4 cut(s)	118, 155, 283, 701
Hpy166II	GTNNAC	5 cut(s)	115, 673, 729, 832, 1023
Hpy188I	TCNGA	8 cut(s)	43, 57, 153, 163, 267, 300, 607, 856
Hpy188III	TCNNGA	6 cut(s)	65, 325, 380, 586, 768, 879
Hpy8I	GTNNAC	5 cut(s)	115, 673, 729, 832, 1023
HpyAV	CCTTC	5 cut(s)	268, 534, 734, 816, 904
HpyCH4III	ACNGT	5 cut(s)	595, 677, 936, 1027, 1058
HpyCH4IV	ACGT	1 cut(s)	865
HpyF10VI	GCNNNNNNNGC	4 cut(s)	17, 752, 1037, 1046
HpyF3I	CTNAG	6 cut(s)	12, 162, 378, 395, 557, 971
HpySE526I	ACGT	1 cut(s)	865
Hsp92II	CATG	2 cut(s)	376, 778
Ksp22I	TGATCA	3 cut(s)	148, 295, 582
KspAI	GTTAAC	1 cut(s)	832
Kzo9I	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
LguI	GCTCTTC	1 cut(s)	164
LmnI	GCTCC	4 cut(s)	57, 308, 981, 1132
Lsp1109I	GCAGC	7 cut(s)	85, 238, 447, 628, 739, 789, 1058
LweI	GCATC	1 cut(s)	210
MaeI	CTAG	1 cut(s)	1150
MaeII	ACGT	1 cut(s)	865
MaeIII	GTNAC	2 cut(s)	622, 913
MalI	GATC	6 cut(s)	63, 150, 297, 584, 693, 1078
MboI	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
MboII	GAAGA	8 cut(s)	181, 359, 416, 520, 523, 641, 698, 749
MfeI	CAATTG	2 cut(s)	819, 1041
MhlI	GDGCHC	3 cut(s)	305, 878, 1129
MluCI	AATT	9 cut(s)	121, 157, 319, 383, 469, 655, 697, 819, 1041
MlyI	GAGTC	4 cut(s)	53, 86, 245, 769
MseI	TTAA	3 cut(s)	654, 831, 1053
MspI	CCGG	1 cut(s)	474
MspR9I	CCNGG	5 cut(s)	176, 429, 535, 638, 850
MunI	CAATTG	2 cut(s)	819, 1041
Mva1269I	GAATGC	1 cut(s)	22
MvaI	CCWGG	5 cut(s)	176, 429, 535, 638, 850
MwoI	GCNNNNNNNGC	4 cut(s)	17, 752, 1037, 1046
NcoI	CCATGG	1 cut(s)	372
NdeII	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
NlaIII	CATG	2 cut(s)	376, 778
NlaIV	GGNNCC	3 cut(s)	117, 772, 977
NmeAIII	GCCGAG	1 cut(s)	74
PciSI	GCTCTTC	1 cut(s)	164
PctI	GAATGC	1 cut(s)	22
PfeI	GAWTC	2 cut(s)	367, 944
PflMI	CCANNNNNTGG	1 cut(s)	268
PkrI	GCNGC	7 cut(s)	100, 253, 462, 643, 754, 804, 1048
PleI	GAGTC	4 cut(s)	52, 86, 244, 768
PpsI	GAGTC	4 cut(s)	52, 86, 244, 768
PshAI	GACNNNNGTC	1 cut(s)	1112
PshBI	ATTAAT	1 cut(s)	654
Psp124BI	GAGCTC	1 cut(s)	305
Psp6I	CCWGG	5 cut(s)	174, 427, 533, 636, 848
PspGI	CCWGG	5 cut(s)	174, 427, 533, 636, 848
PspN4I	GGNNCC	3 cut(s)	117, 772, 977
PspPI	GGNCC	2 cut(s)	115, 214
PstI	CTGCAG	1 cut(s)	465
PstNI	CAGNNNCTG	2 cut(s)	460, 1031
RsaI	GTAC	1 cut(s)	895
RsaNI	GTAC	1 cut(s)	894
SacI	GAGCTC	1 cut(s)	305
SapI	GCTCTTC	1 cut(s)	164
SaqAI	TTAA	3 cut(s)	654, 831, 1053
SatI	GCNGC	7 cut(s)	99, 252, 461, 642, 753, 803, 1047
Sau3AI	GATC	6 cut(s)	61, 148, 295, 582, 691, 1076
Sau96I	GGNCC	2 cut(s)	115, 214
SchI	GAGTC	4 cut(s)	53, 86, 245, 769
ScrFI	CCNGG	5 cut(s)	176, 429, 535, 638, 850
SduI	GDGCHC	3 cut(s)	305, 878, 1129
SfaNI	GCATC	1 cut(s)	210
SfcI	CTRYAG	3 cut(s)	461, 520, 1057
SinI	GGWCC	1 cut(s)	115
SmlI	CTYRAG	2 cut(s)	877, 918
SmoI	CTYRAG	2 cut(s)	877, 918
Sse9I	AATT	9 cut(s)	121, 157, 319, 383, 469, 655, 697, 819, 1041
SsiI	CCGC	3 cut(s)	660, 1062, 1117
SspI	AATATT	1 cut(s)	901
SspMI	CTAG	1 cut(s)	1150
SstI	GAGCTC	1 cut(s)	305
StyD4I	CCNGG	5 cut(s)	174, 427, 533, 636, 848
StyI	CCWWGG	3 cut(s)	372, 412, 979
TaaI	ACNGT	5 cut(s)	595, 677, 936, 1027, 1058
TaiI	ACGT	1 cut(s)	868
TaqI	TCGA	4 cut(s)	30, 66, 234, 709
TasI	AATT	9 cut(s)	121, 157, 319, 383, 469, 655, 697, 819, 1041
TfiI	GAWTC	2 cut(s)	367, 944
Tru1I	TTAA	3 cut(s)	654, 831, 1053
Tru9I	TTAA	3 cut(s)	654, 831, 1053
TscAI	CASTG	2 cut(s)	1032, 1086
TseI	GCWGC	7 cut(s)	98, 251, 460, 641, 752, 802, 1046
TspDTI	ATGAA	3 cut(s)	376, 750, 876
TspRI	CASTG	2 cut(s)	1032, 1086
Van91I	CCANNNNNTGG	1 cut(s)	268
VpaK11BI	GGWCC	1 cut(s)	115
VspI	ATTAAT	1 cut(s)	654
XapI	RAATTY	2 cut(s)	319, 383
XcmI	CCANNNNNNNNNTGG	1 cut(s)	224
XmiI	GTMKAC	1 cut(s)	672
XspI	CTAG	1 cut(s)	1150

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