Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0004127

Physical Location & Seq

Genomic Coordinates Reverse (-)

63869582 .. 63871957

Gene Structure 2376 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG473400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1530 bp

ATGGCCGCCGCAATCACCCCAGCTCCTTCGTCCTCCACCCCAACACCCACCAAAGTGTCCCCCAAGACGGCCCGAAATGCCGTGAATGCCCTTCTGAAATGGCGAAATTCCAAGTCGGAGGCCCAGAAACCCGATATCCTCTCCTCCGACGAACTACTGTACCTCGTCGTGAGCCTGAAGAAAATCCCACCCAAGGGCCGCGTCAACGCCTACAAAATCCCCCTCCCGACTCCCCTCCACTCCCAGCTCACCGAGTTCTGCCTCATCTACGACGACCGGCCCAAGTCCAAGCTCACCAAGGCCCAAATTCAGGCCAAGATCAAGGCCGACAACTTGCCCGTAGTCAAAATCTTGAAGTACACCAAGCTGAAATCAGATTACAAGGCTTTCGAGTCGAAAAGGAAGCTGCTCAACTCGTATGATGTGTTTCTTGCCGATAAGCAGATCGTGCCATTGCTGCCGAGGCTCATCGGGAAGCAGTTCTTCAAGAAGAAGAAGATTCCGGTGCCGGTGGACTTGTTGCACAAGAATTGGAAGGAGCAGATTGATCGGATATGCGGCTCGGCGTTGTTGTTCTTGAGTACTGGGACTTGCAGTGTGGTGAGGGTGGCGAGGACTTCGATGAGGGAGGAGGAGATTGTGGAGAATGTGGTTTCGGCGATTAGTGGGATTGTGGACATTGTGCCCGGGAATTGGGGCGGTGTGAGGTCGTTGCATTTGAAGCTATTGCAGTCGATTCCGCTGCCGCTCTATCAGACTCTGCCCGATGAGGCGGTGAAGGTGGAGGGGGGTGAGAAAGTTGTGGAGGAAGTTAAGGAGGCTGGGAAGGGTGAGAGTAAGGAATTGAAGAAGGAGAAGGTGGGGAAGATGAAGGGGATGATTCATGAAGTGAGGTATTTGGATAGCAGTGCTGGTGAGGTGAAATCGGGTAAGGATAGTGTTGGGGAAGTTAAGGTTGATGTGGATGAGCAACTGGGTGGTGGTGAGTTGAAGAAAGCGAAGAGGAAGAAGGAGAAGGTTGTTGGTGAGTCCAATGGTAAAGCTAGTGAGAATGATGGTGAGTTGAGGAAGTCGAAGAGGAACAAGGAGAAGGTTGTTGGTGAGTTGAAGAGGTCAAAGGAACAGATGGAGAAGTTAGCTAAGCTGGTAGATGAAGATAGTGATTTTGATGTGGAAGTCGCTGAGAAGCGTACAAAGAAGGTGGTTAATCCTAAGTCGGGTAAGGTGAAAGGTGAAGATGTTGAGAAACAGTTGAAAAAGTCGGCTAAGGCGAAAGATGTTGCTGCTTTGAATGGGGAGAAACCATTGAAGAAGTCGGGTAAGGTGAAAGATGATGCTGGCACCATTGTCAAGCATAAAAATGATGAGTTGTCTGCGAAAGACAAGAAAAAAAATGTTATAAAGAAGAAAGGAGATGAGTTGTCTGGCAAAGGCGGACAGGCTGTAGGAAAGAAGGAGAAGAGGAAGAGTGAGCCCGTGAAGTTGAAAAGTGAAGAGGCAAAGCTCAAGAAAGCCAAGAGAAGTAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0008150 GO:0010941 GO:0031974 GO:0031981 GO:0042981 GO:0043067 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048583 GO:0050789 GO:0050793 GO:0050794 GO:0065007 GO:0070013 GO:0080134 GO:0080135 GO:0090342 GO:2000772

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ribosomal_L1

Protein Analysis

509

Amino Acids

56.25

Weight (kDa)

9.79

Isoelectric Point (pI)

26.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L1	PF00687	49 - 245	3e-44	Ribosomal protein L1p/L10e family

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: OG0004127)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06380 AT2G42650 AT3G58660
fragaria_vesca	FvH4_4g16980 FvH4_6g38200
malus_domestica	MD09G1152200.v1.1 MD17G1139700.v1.1
prunus_persica	Prupe.3G172300_v2.0.a1 Prupe.5G091000_v2.0.a1
pyrus_communis	pycom09g07150 pycom17g13280
rosa_chinensis	RchiOBHm_Chr2g0151461 RchiOBHm_Chr4g0420651
rosa_laevigata	RLG00000007744 RLG00000020550
rosa_multiflora	Rmu_co8481729.1_g000001 Rmu_sc0000940.1_g000011 Rmu_sc0007337.1_g000002 Rmu_sc0011080.1_g000010
rosa_roxburghii	Rroxscaffold_2G00096450 Rroxscaffold_5G00363190
rosa_rugosa	Rorug02G0426100 Rorug04G0165100
rosa_samantha	Rh2AG486900 Rh2BG499300 Rh2CG473400 Rh4AG226700 Rh4BG229300 Rh4CG241700 Rh4DG225000
rosa_wichuraiana	Rw2G039910 Rw4G019600 Rw4G019620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1400
AccB1I	GGYRCC	2 cut(s)	505, 1340
AccBSI	CCGCTC	1 cut(s)	748
AccII	CGCG	1 cut(s)	201
AciI	CCGC	9 cut(s)	6, 9, 199, 558, 699, 740, 746, 773, 1434
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	2 cut(s)	106, 306
AcuI	CTGAAG	1 cut(s)	197
AfaI	GTAC	4 cut(s)	161, 359, 583, 1192
AfiI	CCNNNNNNNGG	6 cut(s)	67, 193, 194, 310, 693, 1217
AleI	CACNNNNGTG	1 cut(s)	53
AlwNI	CAGNNNCTG	1 cut(s)	760
Ama87I	CYCGRG	1 cut(s)	686
AoxI	GGCC	8 cut(s)	3, 69, 120, 196, 278, 300, 312, 324
ApeKI	GCWGC	4 cut(s)	406, 457, 742, 1283
ApoI	RAATTY	2 cut(s)	106, 306
Asp700I	GAANNNNTTC	1 cut(s)	479
AspS9I	GGNCC	5 cut(s)	70, 121, 196, 279, 301
AsuC2I	CCSGG	2 cut(s)	687, 688
AvaI	CYCGRG	1 cut(s)	686
BaeGI	GKGCMC	1 cut(s)	687
BaeI	ACNNNNGTAYC	2 cut(s)	143, 176
BanI	GGYRCC	2 cut(s)	505, 1340
BanII	GRGCYC	1 cut(s)	1476
BbvI	GCAGC	4 cut(s)	393, 444, 729, 1270
BccI	CCATC	2 cut(s)	1049, 1120
BceAI	ACGGC	2 cut(s)	65, 84
BcgI	CGANNNNNNTGC	4 cut(s)	530, 564, 724, 758
BcnI	CCSGG	2 cut(s)	687, 688
BfaI	CTAG	1 cut(s)	1044
BfmI	CTRYAG	1 cut(s)	1443
BisI	GCNGC	9 cut(s)	6, 9, 199, 407, 458, 559, 743, 746, 1284
BlpI	GCTNAGC	1 cut(s)	1140
BlsI	GCNGC	9 cut(s)	7, 10, 200, 408, 459, 560, 744, 747, 1285
BmcAI	AGTACT	1 cut(s)	583
Bme1390I	CCNGG	2 cut(s)	687, 688
BmeT110I	CYCGRG	1 cut(s)	686
BmgT120I	GGNCC	5 cut(s)	70, 121, 196, 279, 301
BmiI	GGNNCC	2 cut(s)	507, 1342
BmrFI	CCNGG	2 cut(s)	687, 688
BmrI	ACTGGG	2 cut(s)	594, 983
BmsI	GCATC	1 cut(s)	1324
BmuI	ACTGGG	2 cut(s)	594, 983
Bpu10I	CCTNAGC	1 cut(s)	1266
Bpu1102I	GCTNAGC	1 cut(s)	1140
BpuEI	CTTGAG	2 cut(s)	598, 1490
BpuMI	CCSGG	2 cut(s)	687, 688
BsaJI	CCNNGG	4 cut(s)	192, 297, 461, 686
BsaWI	WCCGGW	1 cut(s)	502
BsaXI	ACNNNNNCTCC	2 cut(s)	7, 37
Bsc4I	CCNNNNNNNGG	6 cut(s)	67, 193, 194, 310, 693, 1217
Bse118I	RCCGGY	2 cut(s)	276, 508
Bse1I	ACTGG	2 cut(s)	589, 978
Bse3DI	GCAATG	1 cut(s)	452
BseDI	CCNNGG	4 cut(s)	192, 297, 461, 686
BseGI	GGATG	2 cut(s)	882, 970
BseLI	CCNNNNNNNGG	6 cut(s)	67, 193, 194, 310, 693, 1217
BseMI	GCAATG	1 cut(s)	452
BseMII	CTCAG	1 cut(s)	1173
BseNI	ACTGG	2 cut(s)	589, 978
BseRI	GAGGAG	3 cut(s)	133, 644, 647
BseSI	GKGCMC	1 cut(s)	687
BseXI	GCAGC	4 cut(s)	393, 444, 729, 1270
BseYI	CCCAGC	3 cut(s)	19, 243, 821
Bsh1236I	CGCG	1 cut(s)	201
Bsh1285I	CGRYCG	1 cut(s)	277
BshFI	GGCC	8 cut(s)	5, 71, 122, 198, 280, 302, 314, 326
BshNI	GGYRCC	2 cut(s)	505, 1340
BsiEI	CGRYCG	1 cut(s)	277
BsiHKCI	CYCGRG	1 cut(s)	686
BsiSI	CCGG	4 cut(s)	277, 503, 509, 687
BslFI	GGGAC	2 cut(s)	43, 601
BslI	CCNNNNNNNGG	6 cut(s)	67, 193, 194, 310, 693, 1217
BsmFI	GGGAC	2 cut(s)	43, 601
BsmI	GAATGC	1 cut(s)	91
BsnI	GGCC	8 cut(s)	5, 71, 122, 198, 280, 302, 314, 326
BsoBI	CYCGRG	1 cut(s)	686
Bsp1286I	GDGCHC	2 cut(s)	687, 1476
Bsp143I	GATC	3 cut(s)	318, 444, 547
Bsp1720I	GCTNAGC	1 cut(s)	1140
BspACI	CCGC	9 cut(s)	6, 9, 199, 558, 699, 740, 746, 773, 1434
BspANI	GGCC	8 cut(s)	5, 71, 122, 198, 280, 302, 314, 326
BspCNI	CTCAG	1 cut(s)	1174
BspFNI	CGCG	1 cut(s)	201
BspHI	TCATGA	1 cut(s)	883
BspLI	GGNNCC	2 cut(s)	507, 1342
BspT107I	GGYRCC	2 cut(s)	505, 1340
BsrBI	CCGCTC	1 cut(s)	748
BsrDI	GCAATG	1 cut(s)	452
BsrFI	RCCGGY	2 cut(s)	276, 508
BsrI	ACTGG	2 cut(s)	589, 978
BssAI	RCCGGY	2 cut(s)	276, 508
BssECI	CCNNGG	4 cut(s)	192, 297, 461, 686
BssMI	GATC	3 cut(s)	318, 444, 547
BssT1I	CCWWGG	2 cut(s)	192, 297
Bst4CI	ACNGT	2 cut(s)	159, 1251
Bst6I	CTCTTC	6 cut(s)	995, 1070, 1103, 1454, 1460, 1488
BstAPI	GCANNNNNTGC	1 cut(s)	448
BstC8I	GCNNGC	1 cut(s)	1339
BstDEI	CTNAG	4 cut(s)	1140, 1182, 1212, 1266
BstF5I	GGATG	2 cut(s)	882, 970
BstFNI	CGCG	1 cut(s)	201
BstKTI	GATC	3 cut(s)	321, 447, 550
BstMBI	GATC	3 cut(s)	318, 444, 547
BstMCI	CGRYCG	1 cut(s)	277
BstMWI	GCNNNNNNNGC	6 cut(s)	77, 86, 448, 457, 463, 721
BstSCI	CCNGG	2 cut(s)	685, 686
BstSFI	CTRYAG	1 cut(s)	1443
BstSLI	GKGCMC	1 cut(s)	687
BstUI	CGCG	1 cut(s)	201
BstV1I	GCAGC	4 cut(s)	393, 444, 729, 1270
BsuRI	GGCC	8 cut(s)	5, 71, 122, 198, 280, 302, 314, 326
BtsCI	GGATG	2 cut(s)	882, 970
BtsI	GCAGTG	2 cut(s)	601, 913
BtsIMutI	CAGTG	2 cut(s)	601, 913
Cac8I	GCNNGC	1 cut(s)	1339
CaiI	CAGNNNCTG	1 cut(s)	760
CciI	TCATGA	1 cut(s)	883
Cfr10I	RCCGGY	2 cut(s)	276, 508
Cfr13I	GGNCC	5 cut(s)	70, 121, 196, 279, 301
Cfr9I	CCCGGG	1 cut(s)	686
CseI	GACGC	1 cut(s)	190
Csp6I	GTAC	4 cut(s)	160, 358, 582, 1191
CspCI	CAANNNNNGTGG	2 cut(s)	1182, 1217
CviAII	CATG	1 cut(s)	884
CviQI	GTAC	4 cut(s)	160, 358, 582, 1191
DdeI	CTNAG	4 cut(s)	1140, 1182, 1212, 1266
DpnI	GATC	3 cut(s)	320, 446, 549
DpnII	GATC	3 cut(s)	318, 444, 547
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	6 cut(s)	995, 1070, 1103, 1454, 1460, 1488
EarI	CTCTTC	6 cut(s)	995, 1070, 1103, 1454, 1460, 1488
EciI	GGCGGA	1 cut(s)	1449
Eco130I	CCWWGG	2 cut(s)	192, 297
Eco24I	GRGCYC	1 cut(s)	1476
Eco32I	GATATC	1 cut(s)	136
Eco57I	CTGAAG	1 cut(s)	197
Eco88I	CYCGRG	1 cut(s)	686
EcoRV	GATATC	1 cut(s)	136
EcoT14I	CCWWGG	2 cut(s)	192, 297
EcoT38I	GRGCYC	1 cut(s)	1476
ErhI	CCWWGG	2 cut(s)	192, 297
FaeI	CATG	1 cut(s)	887
FaiI	YATR	5 cut(s)	420, 556, 885, 1356, 1400
FalI	AAGNNNNNCTT	2 cut(s)	467, 499
FaqI	GGGAC	2 cut(s)	43, 601
FatI	CATG	1 cut(s)	883
Fnu4HI	GCNGC	9 cut(s)	6, 9, 199, 407, 458, 559, 743, 746, 1284
FokI	GGATG	2 cut(s)	889, 977
FriOI	GRGCYC	1 cut(s)	1476
Fsp4HI	GCNGC	9 cut(s)	6, 9, 199, 407, 458, 559, 743, 746, 1284
FspBI	CTAG	1 cut(s)	1044
GluI	GCNGC	9 cut(s)	6, 9, 199, 407, 458, 559, 743, 746, 1284
GsaI	CCCAGC	3 cut(s)	23, 247, 825
HaeIII	GGCC	8 cut(s)	5, 71, 122, 198, 280, 302, 314, 326
HapII	CCGG	4 cut(s)	277, 503, 509, 687
HgaI	GACGC	1 cut(s)	190
Hin1II	CATG	1 cut(s)	887
HincII	GTYRAC	1 cut(s)	205
HindII	GTYRAC	1 cut(s)	205
HinfI	GANTC	7 cut(s)	229, 392, 499, 736, 757, 880, 1028
HpaII	CCGG	4 cut(s)	277, 503, 509, 687
Hpy166II	GTNNAC	4 cut(s)	205, 360, 514, 676
Hpy188I	TCNGA	6 cut(s)	96, 118, 148, 376, 552, 756
Hpy188III	TCNNGA	8 cut(s)	169, 226, 352, 472, 487, 577, 884, 1507
Hpy8I	GTNNAC	4 cut(s)	205, 360, 514, 676
Hpy99I	CGWCG	3 cut(s)	152, 170, 275
HpyCH4III	ACNGT	2 cut(s)	159, 1251
HpyCH4V	TGCA	4 cut(s)	523, 594, 715, 730
HpyF10VI	GCNNNNNNNGC	6 cut(s)	77, 86, 448, 457, 463, 721
HpyF3I	CTNAG	4 cut(s)	1140, 1182, 1212, 1266
Hsp92II	CATG	1 cut(s)	887
Kzo9I	GATC	3 cut(s)	318, 444, 547
LmnI	GCTCC	2 cut(s)	28, 538
Lsp1109I	GCAGC	4 cut(s)	393, 444, 729, 1270
LweI	GCATC	1 cut(s)	1324
MaeI	CTAG	1 cut(s)	1044
MalI	GATC	3 cut(s)	320, 446, 549
MbiI	CCGCTC	1 cut(s)	748
MboI	GATC	3 cut(s)	318, 444, 547
MhlI	GDGCHC	2 cut(s)	687, 1476
MluCI	AATT	5 cut(s)	106, 306, 529, 691, 842
MlyI	GAGTC	4 cut(s)	223, 401, 751, 1037
MmeI	TCCRAC	2 cut(s)	96, 171
MroXI	GAANNNNTTC	1 cut(s)	479
MseI	TTAA	3 cut(s)	813, 951, 1206
MslI	CAYNNNNRTG	2 cut(s)	53, 1359
MspA1I	CMGCKG	1 cut(s)	742
MspI	CCGG	4 cut(s)	277, 503, 509, 687
MspR9I	CCNGG	2 cut(s)	687, 688
Mva1269I	GAATGC	1 cut(s)	91
MvnI	CGCG	1 cut(s)	201
MwoI	GCNNNNNNNGC	6 cut(s)	77, 86, 448, 457, 463, 721
NciI	CCSGG	2 cut(s)	687, 688
NdeII	GATC	3 cut(s)	318, 444, 547
NlaIII	CATG	1 cut(s)	887
NlaIV	GGNNCC	2 cut(s)	507, 1342
NmeAIII	GCCGAG	2 cut(s)	486, 542
OliI	CACNNNNGTG	1 cut(s)	53
PagI	TCATGA	1 cut(s)	883
PcsI	WCGNNNNNNNCGW	1 cut(s)	1268
PctI	GAATGC	1 cut(s)	91
PdmI	GAANNNNTTC	1 cut(s)	479
PfeI	GAWTC	3 cut(s)	499, 736, 880
PkrI	GCNGC	9 cut(s)	7, 10, 200, 408, 459, 560, 744, 747, 1285
PleI	GAGTC	4 cut(s)	223, 400, 751, 1036
PpsI	GAGTC	4 cut(s)	223, 400, 751, 1036
PsiI	TTATAA	1 cut(s)	1400
PspFI	CCCAGC	3 cut(s)	19, 243, 821
PspN4I	GGNNCC	2 cut(s)	507, 1342
PspPI	GGNCC	5 cut(s)	70, 121, 196, 279, 301
PstNI	CAGNNNCTG	1 cut(s)	760
RsaI	GTAC	4 cut(s)	161, 359, 583, 1192
RsaNI	GTAC	4 cut(s)	160, 358, 582, 1191
RseI	CAYNNNNRTG	2 cut(s)	53, 1359
SaqAI	TTAA	3 cut(s)	813, 951, 1206
SatI	GCNGC	9 cut(s)	6, 9, 199, 407, 458, 559, 743, 746, 1284
Sau3AI	GATC	3 cut(s)	318, 444, 547
Sau96I	GGNCC	5 cut(s)	70, 121, 196, 279, 301
ScaI	AGTACT	1 cut(s)	583
SchI	GAGTC	4 cut(s)	223, 401, 751, 1037
ScrFI	CCNGG	2 cut(s)	687, 688
SduI	GDGCHC	2 cut(s)	687, 1476
SfaNI	GCATC	1 cut(s)	1324
SfcI	CTRYAG	1 cut(s)	1443
SmaI	CCCGGG	1 cut(s)	688
SmiMI	CAYNNNNRTG	2 cut(s)	53, 1359
SmlI	CTYRAG	2 cut(s)	577, 1505
SmoI	CTYRAG	2 cut(s)	577, 1505
Sse9I	AATT	5 cut(s)	106, 306, 529, 691, 842
SsiI	CCGC	9 cut(s)	6, 9, 199, 558, 699, 740, 746, 773, 1434
SspMI	CTAG	1 cut(s)	1044
StyD4I	CCNGG	2 cut(s)	685, 686
StyI	CCWWGG	2 cut(s)	192, 297
TaaI	ACNGT	2 cut(s)	159, 1251
TaqI	TCGA	5 cut(s)	390, 395, 620, 734, 1073
TasI	AATT	5 cut(s)	106, 306, 529, 691, 842
TatI	WGTACW	2 cut(s)	357, 581
TauI	GCSGC	5 cut(s)	8, 11, 201, 561, 748
TfiI	GAWTC	3 cut(s)	499, 736, 880
Tru1I	TTAA	3 cut(s)	813, 951, 1206
Tru9I	TTAA	3 cut(s)	813, 951, 1206
TscAI	CASTG	2 cut(s)	601, 913
TseI	GCWGC	4 cut(s)	406, 457, 742, 1283
TspDTI	ATGAA	4 cut(s)	872, 884, 900, 1167
TspMI	CCCGGG	1 cut(s)	686
TspRI	CASTG	2 cut(s)	601, 913
XapI	RAATTY	2 cut(s)	106, 306
XmaI	CCCGGG	1 cut(s)	686
XmnI	GAANNNNTTC	1 cut(s)	479
XspI	CTAG	1 cut(s)	1044
ZrmI	AGTACT	1 cut(s)	583

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