Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002496

Physical Location & Seq

Genomic Coordinates Forward (+)

1114547 .. 1118709

Gene Structure 4163 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00277910.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGGCTGTTGCTGAGAATGCACCGAGCTTCGATAACTCATCGGAGTCCAATGCTCAGAACGATCTCGAAAACCCACCAAAACCCAAAATGGACTCGGCTGCTGTGGTGAGTGTGGACCCCAATTTACAGTCCAATGGTGGTGATGATCAGAGTCCTGAGCTGCAGAAGGCTCAAATGGGCCAGATGCAAAATGGGTTCGAGTCCAATGGGGCGGCTGCTGATGACCATCAGATGGTGAAGGCTGGTGGGTATGGGACTGATCAGAGCTCCAATGGGGATGAGAATTTCAAGAGGGATATGAGGGATTTGGAAGAGTTGTTGTCCAAGTTGAATCCCATGGCTCAGGAATTCATACCTCTAAGCCTTGCCAACAACCAAGGGTTTGCTCTTCCTGGTGGATTTGGCTACACTAACAATCTGTTGCTGCAGGCCAATTCCGGCAATGGGAATGGATTTATGGGCAAAAGGCAGAAGAAGAATGGCTATAGTAATCAAGCCAGGAGAAGGAACTATTACAAGCTGAGTTTGGCACAGCGAGAGGAGATGATCAGGAGGACTGTGTATGTTTCTGACATTGACCAACAGGTTACTGAAGAGAACCTGGCTGCTCTCTTTATTAATTGCGGACAGGTTGTAGACTGTCGTGTATGTGGTGATCCTAATTCTGTTCTTCGATTTGCTTTTATTGAGTTTACAGATGAAGAAGGTGCAATGGCTGCTTTGAGTCTGTCAGGAACCATGCTTGGCTACTACCCTGTAAGAGTGCTGCCTTCCAAAACTGCAATTGCACCTGTTAACCCAACATTTTTGCCCAGGTCAGATGATGAACGTGAAATGTGCTCAAGAACTATTTATTGTACCAATATTGACAAGAAGGTTACTCAAGCTGATGTCAAACTGTTTTTTGAATCACTTTGTGGAGAGGTTCAGCGCCTGAGGCTCCTTGGAGACTATCATCATTCCACTCGTATTTGTTTTGTTGAGTTTACAGTGGCTGAAAGTGCAATTGCAGCTCTTAACTGTAGCGGTGTAGTTTTGGGATCACTGCCTATAAGGGTCAGCCCATCAAAGACACCTGTCCGCCCCCGTGCTCCTCCTCGCTCTCCCTTGCACTAG

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

371

Amino Acids

40.68

Weight (kDa)

5.32

Isoelectric Point (pI)

43.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	187 - 249	8.1e-12	RNA recognition motif
RRM_1	PF00076	284 - 351	6.3e-09	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

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)	232
AccI	GTMKAC	1 cut(s)	636
AciI	CCGC	4 cut(s)	212, 624, 1026, 1081
AclWI	GGATC	2 cut(s)	650, 1048
AcsI	RAATTY	2 cut(s)	283, 347
AcuI	CTGAAG	1 cut(s)	612
AdeI	CACNNNGTG	1 cut(s)	917
AfaI	GTAC	1 cut(s)	859
AfiI	CCNNNNNNNGG	3 cut(s)	232, 444, 504
AgsI	TTSAA	3 cut(s)	289, 331, 908
AjnI	CCWGG	4 cut(s)	391, 497, 600, 812
AluBI	AGCT	6 cut(s)	27, 160, 267, 520, 887, 1013
AluI	AGCT	6 cut(s)	27, 160, 267, 520, 887, 1013
Alw21I	GWGCWC	3 cut(s)	269, 842, 1093
Alw26I	GTCTC	1 cut(s)	942
AlwI	GGATC	2 cut(s)	650, 1048
AlwNI	CAGNNNCTG	2 cut(s)	934, 995
AoxI	GGCC	2 cut(s)	178, 429
ApeKI	GCWGC	8 cut(s)	98, 160, 215, 424, 605, 716, 766, 1010
ApoI	RAATTY	2 cut(s)	283, 347
AseI	ATTAAT	1 cut(s)	618
AspLEI	GCGC	1 cut(s)	933
AspS9I	GGNCC	2 cut(s)	115, 178
AsuHPI	GGTGA	4 cut(s)	118, 152, 247, 665
AvaII	GGWCC	1 cut(s)	115
AxyI	CCTNAGG	1 cut(s)	935
BanII	GRGCYC	1 cut(s)	269
Bbv12I	GWGCWC	3 cut(s)	269, 842, 1093
BbvI	GCAGC	8 cut(s)	85, 147, 202, 411, 592, 703, 753, 1022
BccI	CCATC	3 cut(s)	226, 234, 1072
BciT130I	CCWGG	4 cut(s)	393, 499, 602, 814
BclI	TGATCA	3 cut(s)	145, 259, 546
BcoDI	GTCTC	1 cut(s)	942
BfaI	CTAG	1 cut(s)	1114
BfmI	CTRYAG	4 cut(s)	161, 425, 484, 1021
BfoI	RGCGCY	1 cut(s)	934
BisI	GCNGC	9 cut(s)	99, 161, 213, 216, 425, 606, 717, 767, 1011
BlsI	GCNGC	9 cut(s)	100, 162, 214, 217, 426, 607, 718, 768, 1012
Bme1390I	CCNGG	4 cut(s)	393, 499, 602, 814
Bme18I	GGWCC	1 cut(s)	115
BmgT120I	GGNCC	2 cut(s)	115, 178
BmiI	GGNNCC	3 cut(s)	117, 736, 941
BmrFI	CCNGG	4 cut(s)	393, 499, 602, 814
BmsI	GCATC	1 cut(s)	174
BoxI	GACNNNNGTC	1 cut(s)	1076
Bpu10I	CCTNAGC	2 cut(s)	156, 342
BpuEI	CTTGAG	2 cut(s)	826, 867
BsaBI	GATNNNNATC	1 cut(s)	225
BsaJI	CCNNGG	4 cut(s)	336, 376, 812, 943
Bsc4I	CCNNNNNNNGG	3 cut(s)	232, 444, 504
Bse21I	CCTNAGG	1 cut(s)	935
Bse3DI	GCAATG	2 cut(s)	448, 717
Bse8I	GATNNNNATC	1 cut(s)	225
BseBI	CCWGG	4 cut(s)	393, 499, 602, 814
BseDI	CCNNGG	4 cut(s)	336, 376, 812, 943
BseGI	GGATG	1 cut(s)	283
BseJI	GATNNNNATC	1 cut(s)	225
BseLI	CCNNNNNNNGG	3 cut(s)	232, 444, 504
BseMI	GCAATG	2 cut(s)	448, 717
BseMII	CTCAG	5 cut(s)	68, 147, 356, 512, 926
BseRI	GAGGAG	3 cut(s)	554, 1083, 1086
BseXI	GCAGC	8 cut(s)	85, 147, 202, 411, 592, 703, 753, 1022
BshFI	GGCC	2 cut(s)	180, 431
BsiHKAI	GWGCWC	3 cut(s)	269, 842, 1093
BsiSI	CCGG	1 cut(s)	438
BslFI	GGGAC	1 cut(s)	268
BslI	CCNNNNNNNGG	3 cut(s)	232, 444, 504
BsmAI	GTCTC	1 cut(s)	942
BsmFI	GGGAC	1 cut(s)	268
BsmI	GAATGC	1 cut(s)	22
BsnI	GGCC	2 cut(s)	180, 431
Bsp1286I	GDGCHC	3 cut(s)	269, 842, 1093
Bsp143I	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
Bsp19I	CCATGG	1 cut(s)	336
BspACI	CCGC	4 cut(s)	212, 624, 1026, 1081
BspANI	GGCC	2 cut(s)	180, 431
BspCNI	CTCAG	6 cut(s)	4, 67, 148, 355, 513, 927
BspLI	GGNNCC	3 cut(s)	117, 736, 941
BspMAI	CTGCAG	2 cut(s)	165, 429
BspPI	GGATC	2 cut(s)	650, 1048
BspQI	GCTCTTC	1 cut(s)	393
BsrDI	GCAATG	2 cut(s)	448, 717
BssECI	CCNNGG	4 cut(s)	336, 376, 812, 943
BssMI	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
BssT1I	CCWWGG	3 cut(s)	336, 376, 943
Bst2UI	CCWGG	4 cut(s)	393, 499, 602, 814
Bst4CI	ACNGT	6 cut(s)	129, 559, 641, 900, 991, 1022
Bst6I	CTCTTC	3 cut(s)	306, 393, 588
BstAPI	GCANNNNNTGC	1 cut(s)	716
BstC8I	GCNNGC	1 cut(s)	429
BstDEI	CTNAG	7 cut(s)	12, 54, 156, 342, 359, 521, 935
BstDSI	CCRYGG	1 cut(s)	336
BstF5I	GGATG	1 cut(s)	283
BstH2I	RGCGCY	1 cut(s)	934
BstHHI	GCGC	1 cut(s)	933
BstKTI	GATC	6 cut(s)	64, 148, 262, 549, 658, 1043
BstMAI	GTCTC	1 cut(s)	942
BstMBI	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
BstMWI	GCNNNNNNNGC	5 cut(s)	17, 716, 937, 1001, 1010
BstNI	CCWGG	4 cut(s)	393, 499, 602, 814
BstPAI	GACNNNNGTC	1 cut(s)	1076
BstSCI	CCNGG	4 cut(s)	391, 497, 600, 812
BstSFI	CTRYAG	4 cut(s)	161, 425, 484, 1021
BstV1I	GCAGC	8 cut(s)	85, 147, 202, 411, 592, 703, 753, 1022
Bsu36I	CCTNAGG	1 cut(s)	935
BsuRI	GGCC	2 cut(s)	180, 431
BtgI	CCRYGG	1 cut(s)	336
BtsCI	GGATG	1 cut(s)	283
BtsI	GCAGTG	1 cut(s)	1043
BtsIMutI	CAGTG	2 cut(s)	996, 1043
Cac8I	GCNNGC	1 cut(s)	429
CaiI	CAGNNNCTG	2 cut(s)	934, 995
CfoI	GCGC	1 cut(s)	933
Cfr13I	GGNCC	2 cut(s)	115, 178
Csp6I	GTAC	1 cut(s)	858
CviAII	CATG	2 cut(s)	337, 739
CviQI	GTAC	1 cut(s)	858
DdeI	CTNAG	7 cut(s)	12, 54, 156, 342, 359, 521, 935
DpnI	GATC	6 cut(s)	63, 147, 261, 548, 657, 1042
DpnII	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
DraIII	CACNNNGTG	1 cut(s)	917
Eam1104I	CTCTTC	3 cut(s)	306, 393, 588
EarI	CTCTTC	3 cut(s)	306, 393, 588
EciI	GGCGGA	1 cut(s)	1070
Ecl136II	GAGCTC	1 cut(s)	267
Eco130I	CCWWGG	3 cut(s)	336, 376, 943
Eco24I	GRGCYC	1 cut(s)	269
Eco47I	GGWCC	1 cut(s)	115
Eco53kI	GAGCTC	1 cut(s)	267
Eco57I	CTGAAG	1 cut(s)	612
Eco81I	CCTNAGG	1 cut(s)	935
EcoICRI	GAGCTC	1 cut(s)	267
EcoRI	GAATTC	1 cut(s)	347
EcoRII	CCWGG	4 cut(s)	391, 497, 600, 812
EcoT14I	CCWWGG	3 cut(s)	336, 376, 943
EcoT38I	GRGCYC	1 cut(s)	269
ErhI	CCWWGG	3 cut(s)	336, 376, 943
FaeI	CATG	2 cut(s)	340, 742
FaqI	GGGAC	1 cut(s)	268
FatI	CATG	2 cut(s)	336, 738
FbaI	TGATCA	3 cut(s)	145, 259, 546
FblI	GTMKAC	1 cut(s)	636
Fnu4HI	GCNGC	9 cut(s)	99, 161, 213, 216, 425, 606, 717, 767, 1011
FokI	GGATG	1 cut(s)	290
FriOI	GRGCYC	1 cut(s)	269
Fsp4HI	GCNGC	9 cut(s)	99, 161, 213, 216, 425, 606, 717, 767, 1011
FspBI	CTAG	1 cut(s)	1114
GlaI	GCGC	1 cut(s)	932
GluI	GCNGC	9 cut(s)	99, 161, 213, 216, 425, 606, 717, 767, 1011
HaeII	RGCGCY	1 cut(s)	934
HaeIII	GGCC	2 cut(s)	180, 431
HapII	CCGG	1 cut(s)	438
HhaI	GCGC	1 cut(s)	933
Hin1II	CATG	2 cut(s)	340, 742
Hin6I	GCGC	1 cut(s)	931
HinP1I	GCGC	1 cut(s)	931
HincII	GTYRAC	1 cut(s)	796
HindII	GTYRAC	1 cut(s)	796
HinfI	GANTC	7 cut(s)	44, 92, 151, 200, 331, 724, 908
HpaI	GTTAAC	1 cut(s)	796
HpaII	CCGG	1 cut(s)	438
HphI	GGTGA	4 cut(s)	118, 152, 247, 665
Hpy166II	GTNNAC	5 cut(s)	115, 637, 693, 796, 987
Hpy188I	TCNGA	7 cut(s)	43, 57, 150, 231, 264, 571, 820
Hpy188III	TCNNGA	7 cut(s)	65, 155, 289, 344, 550, 732, 843
Hpy8I	GTNNAC	5 cut(s)	115, 637, 693, 796, 987
HpyAV	CCTTC	6 cut(s)	160, 232, 498, 698, 780, 868
HpyCH4III	ACNGT	6 cut(s)	129, 559, 641, 900, 991, 1022
HpyCH4IV	ACGT	1 cut(s)	829
HpyF10VI	GCNNNNNNNGC	5 cut(s)	17, 716, 937, 1001, 1010
HpyF3I	CTNAG	7 cut(s)	12, 54, 156, 342, 359, 521, 935
HpySE526I	ACGT	1 cut(s)	829
Hsp92II	CATG	2 cut(s)	340, 742
HspAI	GCGC	1 cut(s)	931
Ksp22I	TGATCA	3 cut(s)	145, 259, 546
KspAI	GTTAAC	1 cut(s)	796
Kzo9I	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
LguI	GCTCTTC	1 cut(s)	393
LmnI	GCTCC	3 cut(s)	272, 945, 1096
Lsp1109I	GCAGC	8 cut(s)	85, 147, 202, 411, 592, 703, 753, 1022
LweI	GCATC	1 cut(s)	174
MaeI	CTAG	1 cut(s)	1114
MaeII	ACGT	1 cut(s)	829
MaeIII	GTNAC	2 cut(s)	586, 877
MalI	GATC	6 cut(s)	63, 147, 261, 548, 657, 1042
MboI	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
MboII	GAAGA	7 cut(s)	323, 380, 484, 487, 605, 662, 713
MfeI	CAATTG	2 cut(s)	783, 1005
MhlI	GDGCHC	3 cut(s)	269, 842, 1093
MluCI	AATT	8 cut(s)	121, 283, 347, 433, 619, 661, 783, 1005
MlyI	GAGTC	5 cut(s)	53, 86, 160, 209, 733
MnlI	CCTC	9 cut(s)	285, 294, 366, 532, 546, 916, 930, 1104, 1107
MseI	TTAA	3 cut(s)	618, 795, 1017
MspI	CCGG	1 cut(s)	438
MspR9I	CCNGG	4 cut(s)	393, 499, 602, 814
MunI	CAATTG	2 cut(s)	783, 1005
Mva1269I	GAATGC	1 cut(s)	22
MvaI	CCWGG	4 cut(s)	393, 499, 602, 814
MwoI	GCNNNNNNNGC	5 cut(s)	17, 716, 937, 1001, 1010
NcoI	CCATGG	1 cut(s)	336
NdeII	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
NlaIII	CATG	2 cut(s)	340, 742
NlaIV	GGNNCC	3 cut(s)	117, 736, 941
NmeAIII	GCCGAG	1 cut(s)	74
PciSI	GCTCTTC	1 cut(s)	393
PctI	GAATGC	1 cut(s)	22
PfeI	GAWTC	2 cut(s)	331, 908
PflMI	CCANNNNNTGG	1 cut(s)	232
PkrI	GCNGC	9 cut(s)	100, 162, 214, 217, 426, 607, 718, 768, 1012
PleI	GAGTC	5 cut(s)	52, 86, 159, 208, 732
PpsI	GAGTC	5 cut(s)	52, 86, 159, 208, 732
PshAI	GACNNNNGTC	1 cut(s)	1076
PshBI	ATTAAT	1 cut(s)	618
Psp124BI	GAGCTC	1 cut(s)	269
Psp6I	CCWGG	4 cut(s)	391, 497, 600, 812
PspGI	CCWGG	4 cut(s)	391, 497, 600, 812
PspN4I	GGNNCC	3 cut(s)	117, 736, 941
PspPI	GGNCC	2 cut(s)	115, 178
PstI	CTGCAG	2 cut(s)	165, 429
PstNI	CAGNNNCTG	2 cut(s)	934, 995
RsaI	GTAC	1 cut(s)	859
RsaNI	GTAC	1 cut(s)	858
SacI	GAGCTC	1 cut(s)	269
SapI	GCTCTTC	1 cut(s)	393
SaqAI	TTAA	3 cut(s)	618, 795, 1017
SatI	GCNGC	9 cut(s)	99, 161, 213, 216, 425, 606, 717, 767, 1011
Sau3AI	GATC	6 cut(s)	61, 145, 259, 546, 655, 1040
Sau96I	GGNCC	2 cut(s)	115, 178
SchI	GAGTC	5 cut(s)	53, 86, 160, 209, 733
ScrFI	CCNGG	4 cut(s)	393, 499, 602, 814
SduI	GDGCHC	3 cut(s)	269, 842, 1093
SfaNI	GCATC	1 cut(s)	174
SfcI	CTRYAG	4 cut(s)	161, 425, 484, 1021
SinI	GGWCC	1 cut(s)	115
SmlI	CTYRAG	2 cut(s)	841, 882
SmoI	CTYRAG	2 cut(s)	841, 882
Sse9I	AATT	8 cut(s)	121, 283, 347, 433, 619, 661, 783, 1005
SsiI	CCGC	4 cut(s)	212, 624, 1026, 1081
SspI	AATATT	1 cut(s)	865
SspMI	CTAG	1 cut(s)	1114
SstI	GAGCTC	1 cut(s)	269
StyD4I	CCNGG	4 cut(s)	391, 497, 600, 812
StyI	CCWWGG	3 cut(s)	336, 376, 943
TaaI	ACNGT	6 cut(s)	129, 559, 641, 900, 991, 1022
TaiI	ACGT	1 cut(s)	832
TaqI	TCGA	4 cut(s)	30, 66, 198, 673
TasI	AATT	8 cut(s)	121, 283, 347, 433, 619, 661, 783, 1005
TauI	GCSGC	1 cut(s)	215
TfiI	GAWTC	2 cut(s)	331, 908
Tru1I	TTAA	3 cut(s)	618, 795, 1017
Tru9I	TTAA	3 cut(s)	618, 795, 1017
TscAI	CASTG	2 cut(s)	996, 1050
TseI	GCWGC	8 cut(s)	98, 160, 215, 424, 605, 716, 766, 1010
TspDTI	ATGAA	3 cut(s)	340, 714, 840
TspRI	CASTG	2 cut(s)	996, 1050
Van91I	CCANNNNNTGG	1 cut(s)	232
VpaK11BI	GGWCC	1 cut(s)	115
VspI	ATTAAT	1 cut(s)	618
XapI	RAATTY	2 cut(s)	283, 347
XcmI	CCANNNNNNNNNTGG	1 cut(s)	188
XmiI	GTMKAC	1 cut(s)	636
XspI	CTAG	1 cut(s)	1114

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