Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001100

Physical Location & Seq

Genomic Coordinates Forward (+)

46975874 .. 46978504

Gene Structure 2631 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00117610.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGTCTCACAGGAAGTTTGAGCACCCCAGACATGGATCCCTTGGATTTCTCCCAAGGAAGCGAGCTGCTCGTCATAGAGGAAAAGTGAAGGCTTTCCCCAAGGATGACCCGTCCAAGCCCTGCAAGTTGACTGCTTTTCTAGGTTACAAGGCTGGGATGACTCACATTGTCAGGGATGTCGAGAAACCTGGGTCAAAGCTTCACAAGAAGGAGACATGCGAGGCTGTCACTATCATTGAGGCTCCTCCAATGGTTGTTGTTGGTGTTGTGGGTTATGTGAAGACACCACGTGGCCTTCGTTCTTTGAACACAGTGTGGGCTCAACATCTAAGTGAGGAGGTTAAGAGGAGGTTTTACAAGAACTGGTGCAAGTCCAAGAAGAAGGCCTTCGCAAAATACTCCAAGACCTATGAAACTGATGAAGGAAAGAAGAATATTGAAGGACAGTTTGAGAAACTAATTAAATATGCTACTGTTATCCGAGTTTTGGCTCACACTCAGATCAGGAAGATGAAGGGATTGAAGCAGAAGAAAGCACATCTTATGGAGATCCAGGTGAATGGTGGCACAATTGCTCAGAAGGTTGAATTTGCTAAAAGCTTCTTTGAGAAGCAAATCCCTATTGATGCTGTCTTCCAGAAAGATGAGATGATCGATATCATTGGTGTAACAAAGGGTAAAGGTTATGAAGGTGTTGTTACTCGTTGGGGTGTAACCCGTCTTCCTCGTAAGACTCATAGGGGTCTGCGTAAGGTTGCTTGTATTGGTGCCTGGCATCCTGCTAGAGTCTCATTTACAGTTGCTAGGGCTGGTCAGAATGGATACCATCATCGTACTGAAATGAACAAGAAAATTTACAAGCTTGGAAAGGCTGGACAAGAGTCTCACACTGCTGTCACTGAGTTTGACAGGACTGAGAAAGACATCACTCCGATTGGTGGCTTCCCTCATTATGGTGTGGTGAAAGACGACTACATTCTGATCAAGGGATGCTGTGTTGGACCCAAGAAGAGGGTTGTTACCCTTCGCCAGTCCCTGCTCAAGCAGACATCTCGTCTTGCTCTCGAGGATATCAAGCTTAAGTTCATCGATACTTCCTCAAAGTTCGGGCATGGTCGCTTCCAGACTACACAAGAGAAACAGAAGTACTATGGACGACTCAAGGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000027 GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015934 GO:0016043 GO:0019538 GO:0022607 GO:0022613 GO:0022618 GO:0022625 GO:0022626 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0042254 GO:0042255 GO:0042273 GO:0043043 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043603 GO:0043604 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0065003 GO:0070925 GO:0071704 GO:0071826 GO:0071840 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L3

Protein Analysis

389

Amino Acids

44.32

Weight (kDa)

10.14

Isoelectric Point (pI)

30.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L3	PF00297	1 - 370	4.4e-195	Ribosomal protein L3

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: OG0001100)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G43170 AT1G61580
fragaria_vesca	FvH4_2g13300 FvH4_2g13300 FvH4_2g13300 FvH4_6g25400 FvH4_6g25400 FvH4_6g25400 FvH4_6g25400
malus_domestica	MD04G1044600.v1.1 MD08G1242000.v1.1 MD15G1435700.v1.1
prunus_persica	Prupe.1G579300_v2.0.a1 Prupe.1G579300_v2.0.a1 Prupe.8G036200_v2.0.a1 Prupe.8G036200_v2.0.a1
pyrus_communis	pycom15g38440
rosa_chinensis	RchiOBHm_Chr2g0125851 RchiOBHm_Chr6g0274741 RchiOBHm_Chr7g0220671
rosa_laevigata	RLG00000002211
rosa_multiflora	Rmu_co8485815.1_g000001 Rmu_sc0006216.1_g000001 Rmu_sc0006223.1_g000009 Rmu_sc0013532.1_g000002 Rmu_ssc0000189.1_g000006
rosa_roxburghii	Rroxscaffold_2G00117610 Rroxscaffold_2G00117670 Rroxscaffold_3G00239250 Rroxscaffold_7G00193980
rosa_rugosa	Rorug02G0259500 Rorug02G0259600 Rorug02G0259700 Rorug02G0259800 Rorug02G0259900 Rorug06G0083600 Rorug07G0195800 Rorug07G0195900 Rorug07G0196000.1 Rorug07G0196100
rosa_samantha	Rh2CG307400 Rh6AG199400 Rh6BG203200 Rh6CG203400 Rh7AG336800 Rh7BG327700 Rh7CG354800 Rh7DG333400
rosa_wichuraiana	Rw2G025710 Rw6G017340 Rw7G028730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	767
AclWI	GGATC	3 cut(s)	30, 43, 544
AcsI	RAATTY	2 cut(s)	587, 852
AcvI	CACGTG	1 cut(s)	290
AdeI	CACNNNGTG	2 cut(s)	290, 315
AfaI	GTAC	2 cut(s)	835, 1148
AfiI	CCNNNNNNNGG	5 cut(s)	32, 487, 938, 953, 1011
AflII	CTTAAG	1 cut(s)	1079
AgsI	TTSAA	4 cut(s)	307, 440, 523, 587
AhdI	GACNNNNNGTC	1 cut(s)	1053
AjnI	CCWGG	3 cut(s)	187, 552, 770
AluBI	AGCT	5 cut(s)	65, 199, 600, 862, 1078
AluI	AGCT	5 cut(s)	65, 199, 600, 862, 1078
Alw21I	GWGCWC	1 cut(s)	24
Alw26I	GTCTC	4 cut(s)	9, 206, 793, 888
AlwI	GGATC	3 cut(s)	30, 43, 544
AlwNI	CAGNNNCTG	1 cut(s)	1036
Ama87I	CYCGRG	1 cut(s)	1064
AoxI	GGCC	2 cut(s)	292, 384
ApeKI	GCWGC	1 cut(s)	65
ApoI	RAATTY	2 cut(s)	587, 852
Asp700I	GAANNNNTTC	2 cut(s)	92, 386
AspS9I	GGNCC	1 cut(s)	1001
AsuHPI	GGTGA	2 cut(s)	568, 973
AvaI	CYCGRG	1 cut(s)	1064
AvaII	GGWCC	1 cut(s)	1001
BamHI	GGATCC	1 cut(s)	35
BanI	GGYRCC	1 cut(s)	767
BanII	GRGCYC	1 cut(s)	322
BarI	GAAGNNNNNNTAC	2 cut(s)	705, 737
BbrPI	CACGTG	1 cut(s)	290
BbsI	GAAGAC	3 cut(s)	287, 625, 713
Bbv12I	GWGCWC	1 cut(s)	24
BbvI	GCAGC	1 cut(s)	52
BccI	CCATC	1 cut(s)	834
BcgI	CGANNNNNNTGC	2 cut(s)	1034, 1068
BciT130I	CCWGG	3 cut(s)	189, 554, 772
BciVI	GTATCC	1 cut(s)	815
BclI	TGATCA	1 cut(s)	981
BcoDI	GTCTC	4 cut(s)	9, 206, 793, 888
BfaI	CTAG	3 cut(s)	140, 783, 804
BfrI	CTTAAG	1 cut(s)	1079
BfuI	GTATCC	1 cut(s)	815
BisI	GCNGC	1 cut(s)	66
BlsI	GCNGC	1 cut(s)	67
BmcAI	AGTACT	1 cut(s)	1148
Bme1390I	CCNGG	3 cut(s)	189, 554, 772
Bme18I	GGWCC	1 cut(s)	1001
BmeRI	GACNNNNNGTC	1 cut(s)	1053
BmeT110I	CYCGRG	1 cut(s)	1064
BmgT120I	GGNCC	1 cut(s)	1001
BmiI	GGNNCC	4 cut(s)	37, 243, 769, 1003
BmrFI	CCNGG	3 cut(s)	189, 554, 772
BmsI	GCATC	3 cut(s)	616, 784, 980
BoxI	GACNNNNGTC	1 cut(s)	880
BpiI	GAAGAC	3 cut(s)	287, 625, 713
BpuEI	CTTGAG	2 cut(s)	1025, 1145
Bsa29I	ATCGAT	2 cut(s)	654, 1089
BsaAI	YACGTR	1 cut(s)	290
BsaBI	GATNNNNATC	1 cut(s)	656
BsaJI	CCNNGG	4 cut(s)	40, 53, 99, 188
Bsc4I	CCNNNNNNNGG	5 cut(s)	32, 487, 938, 953, 1011
Bse1I	ACTGG	2 cut(s)	368, 1030
Bse8I	GATNNNNATC	1 cut(s)	656
BseBI	CCWGG	3 cut(s)	189, 554, 772
BseCI	ATCGAT	2 cut(s)	654, 1089
BseDI	CCNNGG	4 cut(s)	40, 53, 99, 188
BseGI	GGATG	5 cut(s)	109, 162, 181, 775, 995
BseJI	GATNNNNATC	1 cut(s)	656
BseLI	CCNNNNNNNGG	5 cut(s)	32, 487, 938, 953, 1011
BseMII	CTCAG	4 cut(s)	512, 590, 891, 906
BseNI	ACTGG	2 cut(s)	368, 1030
BseRI	GAGGAG	3 cut(s)	234, 350, 361
BseXI	GCAGC	1 cut(s)	52
BseYI	CCCAGC	1 cut(s)	152
BshFI	GGCC	2 cut(s)	294, 386
BshNI	GGYRCC	1 cut(s)	767
BshVI	ATCGAT	2 cut(s)	654, 1089
BsiHKAI	GWGCWC	1 cut(s)	24
BsiHKCI	CYCGRG	1 cut(s)	1064
BslFI	GGGAC	1 cut(s)	1018
BslI	CCNNNNNNNGG	5 cut(s)	32, 487, 938, 953, 1011
BsmAI	GTCTC	4 cut(s)	9, 206, 793, 888
BsmFI	GGGAC	1 cut(s)	1018
BsnI	GGCC	2 cut(s)	294, 386
BsoBI	CYCGRG	1 cut(s)	1064
Bsp1286I	GDGCHC	2 cut(s)	24, 322
Bsp143I	GATC	5 cut(s)	35, 501, 549, 651, 981
BspANI	GGCC	2 cut(s)	294, 386
BspCNI	CTCAG	4 cut(s)	511, 589, 892, 907
BspDI	ATCGAT	2 cut(s)	654, 1089
BspLI	GGNNCC	4 cut(s)	37, 243, 769, 1003
BspPI	GGATC	3 cut(s)	30, 43, 544
BspT107I	GGYRCC	1 cut(s)	767
BspTI	CTTAAG	1 cut(s)	1079
BsrI	ACTGG	2 cut(s)	368, 1030
BssECI	CCNNGG	4 cut(s)	40, 53, 99, 188
BssMI	GATC	5 cut(s)	35, 501, 549, 651, 981
BssT1I	CCWWGG	3 cut(s)	40, 53, 99
Bst2UI	CCWGG	3 cut(s)	189, 554, 772
Bst4CI	ACNGT	4 cut(s)	313, 447, 475, 799
Bst6I	CTCTTC	1 cut(s)	1004
BstAFI	CTTAAG	1 cut(s)	1079
BstBAI	YACGTR	1 cut(s)	290
BstC8I	GCNNGC	1 cut(s)	63
BstDEI	CTNAG	5 cut(s)	329, 498, 576, 900, 915
BstF5I	GGATG	5 cut(s)	109, 162, 181, 775, 995
BstKTI	GATC	5 cut(s)	38, 504, 552, 654, 984
BstMAI	GTCTC	4 cut(s)	9, 206, 793, 888
BstMBI	GATC	5 cut(s)	35, 501, 549, 651, 981
BstNI	CCWGG	3 cut(s)	189, 554, 772
BstNSI	RCATGY	1 cut(s)	219
BstPAI	GACNNNNGTC	1 cut(s)	880
BstSCI	CCNGG	3 cut(s)	187, 552, 770
BstV1I	GCAGC	1 cut(s)	52
BstV2I	GAAGAC	3 cut(s)	287, 625, 713
BstX2I	RGATCY	2 cut(s)	35, 549
BstXI	CCANNNNNNTGG	1 cut(s)	560
BstYI	RGATCY	2 cut(s)	35, 549
Bsu15I	ATCGAT	2 cut(s)	654, 1089
BsuI	GTATCC	1 cut(s)	815
BsuRI	GGCC	2 cut(s)	294, 386
BsuTUI	ATCGAT	2 cut(s)	654, 1089
BtsCI	GGATG	5 cut(s)	109, 162, 181, 775, 995
BtsI	GCAGTG	1 cut(s)	888
BtsIMutI	CAGTG	3 cut(s)	318, 888, 897
Cac8I	GCNNGC	1 cut(s)	63
CaiI	CAGNNNCTG	1 cut(s)	1036
Cfr13I	GGNCC	1 cut(s)	1001
ClaI	ATCGAT	2 cut(s)	654, 1089
Csp6I	GTAC	2 cut(s)	834, 1147
CviAII	CATG	3 cut(s)	32, 216, 1112
CviQI	GTAC	2 cut(s)	834, 1147
DdeI	CTNAG	5 cut(s)	329, 498, 576, 900, 915
DpnI	GATC	5 cut(s)	37, 503, 551, 653, 983
DpnII	GATC	5 cut(s)	35, 501, 549, 651, 981
DraIII	CACNNNGTG	2 cut(s)	290, 315
DriI	GACNNNNNGTC	1 cut(s)	1053
Eam1104I	CTCTTC	1 cut(s)	1004
Eam1105I	GACNNNNNGTC	1 cut(s)	1053
EarI	CTCTTC	1 cut(s)	1004
Eco130I	CCWWGG	3 cut(s)	40, 53, 99
Eco147I	AGGCCT	1 cut(s)	386
Eco24I	GRGCYC	1 cut(s)	322
Eco32I	GATATC	2 cut(s)	658, 1072
Eco47I	GGWCC	1 cut(s)	1001
Eco72I	CACGTG	1 cut(s)	290
Eco88I	CYCGRG	1 cut(s)	1064
EcoRII	CCWGG	3 cut(s)	187, 552, 770
EcoRV	GATATC	2 cut(s)	658, 1072
EcoT14I	CCWWGG	3 cut(s)	40, 53, 99
EcoT38I	GRGCYC	1 cut(s)	322
ErhI	CCWWGG	3 cut(s)	40, 53, 99
FaeI	CATG	3 cut(s)	35, 219, 1115
FalI	AAGNNNNNCTT	4 cut(s)	371, 403, 525, 557
FaqI	GGGAC	1 cut(s)	1018
FatI	CATG	3 cut(s)	31, 215, 1111
FbaI	TGATCA	1 cut(s)	981
Fnu4HI	GCNGC	1 cut(s)	66
FokI	GGATG	5 cut(s)	116, 169, 188, 762, 1002
FriOI	GRGCYC	1 cut(s)	322
Fsp4HI	GCNGC	1 cut(s)	66
FspBI	CTAG	3 cut(s)	140, 783, 804
GluI	GCNGC	1 cut(s)	66
GsaI	CCCAGC	1 cut(s)	156
HaeIII	GGCC	2 cut(s)	294, 386
Hin1II	CATG	3 cut(s)	35, 219, 1115
HincII	GTYRAC	1 cut(s)	129
HindII	GTYRAC	1 cut(s)	129
HindIII	AAGCTT	4 cut(s)	197, 598, 860, 1076
HinfI	GANTC	5 cut(s)	160, 733, 786, 881, 1158
HphI	GGTGA	2 cut(s)	568, 973
Hpy166II	GTNNAC	1 cut(s)	129
Hpy188I	TCNGA	6 cut(s)	482, 501, 579, 816, 933, 981
Hpy188III	TCNNGA	5 cut(s)	181, 505, 637, 1064, 1123
Hpy8I	GTNNAC	1 cut(s)	129
HpyCH4III	ACNGT	4 cut(s)	313, 447, 475, 799
HpyCH4IV	ACGT	1 cut(s)	289
HpyCH4V	TGCA	2 cut(s)	123, 369
HpyF3I	CTNAG	5 cut(s)	329, 498, 576, 900, 915
HpySE526I	ACGT	1 cut(s)	289
Hsp92II	CATG	3 cut(s)	35, 219, 1115
Ksp22I	TGATCA	1 cut(s)	981
Kzo9I	GATC	5 cut(s)	35, 501, 549, 651, 981
LmnI	GCTCC	1 cut(s)	247
Lsp1109I	GCAGC	1 cut(s)	52
LweI	GCATC	3 cut(s)	616, 784, 980
MaeI	CTAG	3 cut(s)	140, 783, 804
MaeII	ACGT	1 cut(s)	289
MaeIII	GTNAC	7 cut(s)	143, 226, 667, 697, 712, 895, 1018
MalI	GATC	5 cut(s)	37, 503, 551, 653, 983
MboI	GATC	5 cut(s)	35, 501, 549, 651, 981
MboII	GAAGA	8 cut(s)	292, 391, 442, 520, 541, 625, 713, 1021
MfeI	CAATTG	1 cut(s)	570
MflI	RGATCY	2 cut(s)	35, 549
MhlI	GDGCHC	2 cut(s)	24, 322
MluCI	AATT	4 cut(s)	459, 570, 587, 852
MlyI	GAGTC	5 cut(s)	154, 727, 795, 890, 1152
MmeI	TCCRAC	1 cut(s)	979
MroXI	GAANNNNTTC	2 cut(s)	92, 386
MseI	TTAA	3 cut(s)	342, 462, 1080
MslI	CAYNNNNRTG	2 cut(s)	330, 954
MspCI	CTTAAG	1 cut(s)	1079
MspR9I	CCNGG	3 cut(s)	189, 554, 772
MunI	CAATTG	1 cut(s)	570
MvaI	CCWGG	3 cut(s)	189, 554, 772
NdeII	GATC	5 cut(s)	35, 501, 549, 651, 981
NlaIII	CATG	3 cut(s)	35, 219, 1115
NlaIV	GGNNCC	4 cut(s)	37, 243, 769, 1003
NmuCI	GTSAC	2 cut(s)	226, 895
NspI	RCATGY	1 cut(s)	219
PaeR7I	CTCGAG	1 cut(s)	1064
PceI	AGGCCT	1 cut(s)	386
PcsI	WCGNNNNNNNCGW	1 cut(s)	295
PdmI	GAANNNNTTC	2 cut(s)	92, 386
PkrI	GCNGC	1 cut(s)	67
PleI	GAGTC	5 cut(s)	154, 727, 794, 889, 1152
PmaCI	CACGTG	1 cut(s)	290
PmlI	CACGTG	1 cut(s)	290
PpsI	GAGTC	5 cut(s)	154, 727, 794, 889, 1152
Ppu21I	YACGTR	1 cut(s)	290
PshAI	GACNNNNGTC	1 cut(s)	880
Psp6I	CCWGG	3 cut(s)	187, 552, 770
PspCI	CACGTG	1 cut(s)	290
PspFI	CCCAGC	1 cut(s)	152
PspGI	CCWGG	3 cut(s)	187, 552, 770
PspN4I	GGNNCC	4 cut(s)	37, 243, 769, 1003
PspPI	GGNCC	1 cut(s)	1001
PstNI	CAGNNNCTG	1 cut(s)	1036
PsuI	RGATCY	2 cut(s)	35, 549
RsaI	GTAC	2 cut(s)	835, 1148
RsaNI	GTAC	2 cut(s)	834, 1147
RseI	CAYNNNNRTG	2 cut(s)	330, 954
SaqAI	TTAA	3 cut(s)	342, 462, 1080
SatI	GCNGC	1 cut(s)	66
Sau3AI	GATC	5 cut(s)	35, 501, 549, 651, 981
Sau96I	GGNCC	1 cut(s)	1001
ScaI	AGTACT	1 cut(s)	1148
SchI	GAGTC	5 cut(s)	154, 727, 795, 890, 1152
ScrFI	CCNGG	3 cut(s)	189, 554, 772
SduI	GDGCHC	2 cut(s)	24, 322
SfaNI	GCATC	3 cut(s)	616, 784, 980
Sfr274I	CTCGAG	1 cut(s)	1064
SinI	GGWCC	1 cut(s)	1001
SlaI	CTCGAG	1 cut(s)	1064
SmiMI	CAYNNNNRTG	2 cut(s)	330, 954
SmlI	CTYRAG	4 cut(s)	1040, 1064, 1079, 1160
SmoI	CTYRAG	4 cut(s)	1040, 1064, 1079, 1160
Sse9I	AATT	4 cut(s)	459, 570, 587, 852
SseBI	AGGCCT	1 cut(s)	386
SspI	AATATT	1 cut(s)	436
SspMI	CTAG	3 cut(s)	140, 783, 804
StuI	AGGCCT	1 cut(s)	386
StyD4I	CCNGG	3 cut(s)	187, 552, 770
StyI	CCWWGG	3 cut(s)	40, 53, 99
TaaI	ACNGT	4 cut(s)	313, 447, 475, 799
TaiI	ACGT	1 cut(s)	292
TaqI	TCGA	4 cut(s)	180, 654, 1065, 1089
TasI	AATT	4 cut(s)	459, 570, 587, 852
TatI	WGTACW	1 cut(s)	1146
Tru1I	TTAA	3 cut(s)	342, 462, 1080
Tru9I	TTAA	3 cut(s)	342, 462, 1080
TscAI	CASTG	3 cut(s)	318, 895, 904
TseFI	GTSAC	2 cut(s)	226, 895
TseI	GCWGC	1 cut(s)	65
Tsp45I	GTSAC	2 cut(s)	226, 895
TspDTI	ATGAA	6 cut(s)	426, 435, 527, 702, 857, 1075
TspRI	CASTG	3 cut(s)	318, 895, 904
Vha464I	CTTAAG	1 cut(s)	1079
VpaK11BI	GGWCC	1 cut(s)	1001
XapI	RAATTY	2 cut(s)	587, 852
XceI	RCATGY	1 cut(s)	219
XcmI	CCANNNNNNNNNTGG	1 cut(s)	560
XhoI	CTCGAG	1 cut(s)	1064
XmnI	GAANNNNTTC	2 cut(s)	92, 386
XspI	CTAG	3 cut(s)	140, 783, 804
ZrmI	AGTACT	1 cut(s)	1148

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