Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0003910

Physical Location & Seq

Genomic Coordinates Forward (+)

1219607 .. 1220959

Gene Structure 1353 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG016900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1353 bp

ATGAACGATCGCAATGTAATTTCCTGGACTACAATGATTTCTATGGATGAAGAGAATGCCATCTCTTTATTCAATGAGATGAGATTGGTTGGAGTATATCCAAATGATGTTACATTTGTTGGACTAATCGATGCTATATCAACTAGGAAGTTGGTGGAAGAAGGCCTTATGATTCATGGGTTTTGCACAAAGACTGGATTTTTGTCAAAGCATAATGTTTGCAATAGCTTTATCACCATGTATGCTAAGTTTGAGTCCATGGATGATTCTGTCAAGGTTTTTGAGGAGTTGGACTTCAGAGAAATCATATCATGGAATGCTTTGATCTCAGGGTATGCTCAGAACGGGCTGTGTCAGGATGCACTGAAGACATTCTTGTCTGCAATCATGGAGTCCACGCCTAACAACTACACATTTGGTAGTGTCTTGAGTGCAATTGGTGATGCTCATGACATTTCTCTGAAGTATGGCCAGCGATGCCTCTCCTTTTTGATAAAACTTGGATCAGTCACTGACTCGATTACAGCAGGTGCTCTCCTTGATATGTATGCAAAGCGAGGAGGCATTTGCGAGTCCCAAAGAGTTTTCAGTGAGACCCCTCACAGAACTCAGTGTGCTTGGACAGCAATAATATCTGCATATGCTGGGCATGGAGACTATGACCCAGTAATCGAATTGTTCTACCAGATGGATAAAGAAGGGGTAAAACCTGACTCGATCACATTTCTTTCTGTACTTAGCGCATGTAGCAGAAAGGGATCAGTTGAGATGGGCCACCATTTCTTTGAATCAATGGTCAAAGACTATCAGATTGAATCATCTCCTCAACATTATGCTTGTATGGTAGACATGTTAGGCCGGGCAGGAAAGCTGGAGGAAGCAGAGGAATTGACGAGTCAGATGTCAGGACAGCCGAGTTTTTCTTTGTTGCAAAGCTTGCTTGGGGCTTGCACGATACATGGGAATGTGGAGATGGCTGAGAGAGTTGCAGATGCTTTAATGCGAATGGAGCCAACTGAATCAGGTTCGTATGTGCTGTTGTCCAACTTGTATGCAGAGAAAGGGGACTGGGAAATGGTGGCAAAAATAAGGAAACAGATGAGAGATAGGGGAGTGAGAAAGGAAGTGGGATTTAGCTGGTTGGATAATGGTGATGCTGATGGTTCTTTGTATCTCCACGGGTTTTCGTCAGGTGATACCTCTCACCGCCAGTCTGAAGAGGTAAGTAGAATGGCGAAATGCATAGGACTAGAAATGAAGTTTTTGAGAGAGAACATGGCTGAGATAGACTCACTGAAACAAGACAGTGAGACACATTCTCAAGTGCCTCATGATGAAGAAGGCTTGTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000960 GO:0000962 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010468 GO:0010604 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903313 GO:1905637 GO:1905639

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

450

Amino Acids

50.25

Weight (kDa)

4.94

Isoelectric Point (pI)

42.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	204 - 250	7.3e-10	PPR repeat family
E_motif	PF20431	320 - 381	1.1e-18	E 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: OG0003910)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32430 AT4G32430
fragaria_vesca	FvH4_1g03430
malus_domestica	MD15G1174400.v1.1
prunus_persica	Prupe.5G003100_v2.0.a1 Prupe.7G240400_v2.0.a1 Prupe.7G241500_v2.0.a1 Prupe.7G241700_v2.0.a1 Prupe.8G249000_v2.0.a1
pyrus_communis	pycom15g15600
rosa_chinensis	RchiOBHm_Chr2g0088661 RchiOBHm_Chr5g0002171
rosa_laevigata	RLG00000015973 RLG00000015974 RLG00000031004
rosa_multiflora	Rmu_sc0006835.1_g000012 Rmu_sc0006835.1_g000013 Rmu_sc0013155.1_g000001 Rmu_sc0015442.1_g000012 Rmu_sc0015442.1_g000013 Rmu_sc0024326.1_g000001 Rmu_sc0041985.1_g000001
rosa_roxburghii	Rroxscaffold_2G00152420
rosa_rugosa	Rorug01G0485700
rosa_samantha	Rh2AG041200 Rh2BG039900 Rh2CG040700 Rh2DG040300 Rh5AG016800 Rh5AG016900 Rh5CG018300 Rh5CG018400 Rh5CG018500
rosa_wichuraiana	Rw2G003320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	518
AasI	GACNNNNNNGTC	1 cut(s)	376
Acc36I	ACCTGC	1 cut(s)	518
AccI	GTMKAC	1 cut(s)	846
AciI	CCGC	1 cut(s)	1207
AclWI	GGATC	2 cut(s)	511, 766
AcoI	YGGCCR	1 cut(s)	469
AcuI	CTGAAG	4 cut(s)	280, 386, 482, 1236
AfaI	GTAC	1 cut(s)	735
AflIII	ACRYGT	1 cut(s)	849
AgsI	TTSAA	3 cut(s)	73, 788, 815
AjnI	CCWGG	1 cut(s)	23
AluBI	AGCT	4 cut(s)	228, 871, 936, 1137
AluI	AGCT	4 cut(s)	228, 871, 936, 1137
Alw21I	GWGCWC	1 cut(s)	535
Alw26I	GTCTC	3 cut(s)	587, 648, 1304
AlwI	GGATC	2 cut(s)	511, 766
AlwNI	CAGNNNCTG	1 cut(s)	512
AoxI	GGCC	4 cut(s)	163, 469, 772, 856
ArsI	GACNNNNNNTTYG	2 cut(s)	184, 216
Asp700I	GAANNNNTTC	1 cut(s)	371
AspLEI	GCGC	1 cut(s)	743
AspS9I	GGNCC	1 cut(s)	772
AsuC2I	CCSGG	1 cut(s)	860
AsuHPI	GGTGA	5 cut(s)	226, 452, 1163, 1196, 1205
BalI	TGGCCA	1 cut(s)	471
BbsI	GAAGAC	1 cut(s)	374
Bbv12I	GWGCWC	1 cut(s)	535
BccI	CCATC	5 cut(s)	68, 682, 763, 967, 1154
BciT130I	CCWGG	1 cut(s)	25
BcnI	CCSGG	1 cut(s)	860
BcoDI	GTCTC	3 cut(s)	587, 648, 1304
BfaI	CTAG	2 cut(s)	144, 1250
BfuAI	ACCTGC	1 cut(s)	518
Bme1390I	CCNGG	2 cut(s)	25, 860
BmgT120I	GGNCC	1 cut(s)	772
BmiI	GGNNCC	1 cut(s)	1011
BmrFI	CCNGG	2 cut(s)	25, 860
BmrI	ACTGGG	2 cut(s)	659, 1078
BmsI	GCATC	6 cut(s)	121, 349, 433, 467, 982, 1144
BmuI	ACTGGG	2 cut(s)	659, 1078
BpiI	GAAGAC	1 cut(s)	374
BplI	GAGNNNNNCTC	2 cut(s)	1274, 1306
BpmI	CTGGAG	1 cut(s)	893
BpuEI	CTTGAG	2 cut(s)	448, 1305
BpuMI	CCSGG	1 cut(s)	860
Bsa29I	ATCGAT	1 cut(s)	129
BsaI	GGTCTC	1 cut(s)	587
BsaJI	CCNNGG	2 cut(s)	258, 1177
Bse1I	ACTGG	4 cut(s)	199, 665, 1073, 1210
Bse3DI	GCAATG	1 cut(s)	19
BseBI	CCWGG	1 cut(s)	25
BseCI	ATCGAT	1 cut(s)	129
BseDI	CCNNGG	2 cut(s)	258, 1177
BseGI	GGATG	3 cut(s)	52, 268, 364
BseMI	GCAATG	1 cut(s)	19
BseMII	CTCAG	5 cut(s)	342, 353, 623, 969, 1272
BseNI	ACTGG	4 cut(s)	199, 665, 1073, 1210
BseRI	GAGGAG	3 cut(s)	299, 573, 813
BseYI	CCCAGC	1 cut(s)	644
Bsh1285I	CGRYCG	1 cut(s)	10
BshFI	GGCC	4 cut(s)	165, 471, 774, 858
BshVI	ATCGAT	1 cut(s)	129
BsiEI	CGRYCG	1 cut(s)	10
BsiHKAI	GWGCWC	1 cut(s)	535
BsiSI	CCGG	1 cut(s)	859
BslFI	GGGAC	2 cut(s)	559, 1079
BsmAI	GTCTC	3 cut(s)	587, 648, 1304
BsmFI	GGGAC	2 cut(s)	559, 1079
BsmI	GAATGC	2 cut(s)	61, 322
BsnI	GGCC	4 cut(s)	165, 471, 774, 858
Bso31I	GGTCTC	1 cut(s)	587
Bsp1286I	GDGCHC	1 cut(s)	535
Bsp143I	GATC	5 cut(s)	7, 324, 503, 717, 758
Bsp19I	CCATGG	1 cut(s)	258
BspACI	CCGC	1 cut(s)	1207
BspANI	GGCC	4 cut(s)	165, 471, 774, 858
BspCNI	CTCAG	5 cut(s)	341, 352, 622, 970, 1273
BspDI	ATCGAT	1 cut(s)	129
BspHI	TCATGA	2 cut(s)	448, 1330
BspLI	GGNNCC	1 cut(s)	1011
BspMI	ACCTGC	1 cut(s)	518
BspPI	GGATC	2 cut(s)	511, 766
BspTNI	GGTCTC	1 cut(s)	587
BsrDI	GCAATG	1 cut(s)	19
BsrI	ACTGG	4 cut(s)	199, 665, 1073, 1210
BssECI	CCNNGG	2 cut(s)	258, 1177
BssMI	GATC	5 cut(s)	7, 324, 503, 717, 758
BssT1I	CCWWGG	1 cut(s)	258
Bst2UI	CCWGG	1 cut(s)	25
Bst4CI	ACNGT	1 cut(s)	1307
Bst6I	CTCTTC	2 cut(s)	45, 1212
BstAPI	GCANNNNNTGC	1 cut(s)	937
BstC8I	GCNNGC	3 cut(s)	473, 938, 949
BstDEI	CTNAG	7 cut(s)	246, 328, 339, 609, 737, 978, 1281
BstDSI	CCRYGG	2 cut(s)	258, 1177
BstF5I	GGATG	3 cut(s)	52, 268, 364
BstHHI	GCGC	1 cut(s)	743
BstKTI	GATC	5 cut(s)	10, 327, 506, 720, 761
BstMAI	GTCTC	3 cut(s)	587, 648, 1304
BstMBI	GATC	5 cut(s)	7, 324, 503, 717, 758
BstMCI	CGRYCG	1 cut(s)	10
BstMWI	GCNNNNNNNGC	5 cut(s)	477, 623, 747, 937, 1009
BstNI	CCWGG	1 cut(s)	25
BstNSI	RCATGY	2 cut(s)	747, 853
BstSCI	CCNGG	2 cut(s)	23, 858
BstV2I	GAAGAC	1 cut(s)	374
Bsu15I	ATCGAT	1 cut(s)	129
BsuRI	GGCC	4 cut(s)	165, 471, 774, 858
BsuTUI	ATCGAT	1 cut(s)	129
BtgI	CCRYGG	2 cut(s)	258, 1177
BtgZI	GCGATG	1 cut(s)	490
BtsCI	GGATG	3 cut(s)	52, 268, 364
BtsIMutI	CAGTG	6 cut(s)	362, 510, 595, 617, 1292, 1312
BveI	ACCTGC	1 cut(s)	518
Cac8I	GCNNGC	3 cut(s)	473, 938, 949
CaiI	CAGNNNCTG	1 cut(s)	512
CciI	TCATGA	2 cut(s)	448, 1330
CfoI	GCGC	1 cut(s)	743
Cfr13I	GGNCC	1 cut(s)	772
ClaI	ATCGAT	1 cut(s)	129
Csp6I	GTAC	1 cut(s)	734
CviQI	GTAC	1 cut(s)	734
DdeI	CTNAG	7 cut(s)	246, 328, 339, 609, 737, 978, 1281
DpnI	GATC	5 cut(s)	9, 326, 505, 719, 760
DpnII	GATC	5 cut(s)	7, 324, 503, 717, 758
DrdI	GACNNNNNNGTC	1 cut(s)	376
DseDI	GACNNNNNNGTC	1 cut(s)	376
EaeI	YGGCCR	1 cut(s)	469
Eam1104I	CTCTTC	2 cut(s)	45, 1212
EarI	CTCTTC	2 cut(s)	45, 1212
Eco130I	CCWWGG	1 cut(s)	258
Eco147I	AGGCCT	1 cut(s)	165
Eco31I	GGTCTC	1 cut(s)	587
Eco57I	CTGAAG	4 cut(s)	280, 386, 482, 1236
EcoRII	CCWGG	1 cut(s)	23
EcoT14I	CCWWGG	1 cut(s)	258
EcoT22I	ATGCAT	1 cut(s)	1244
ErhI	CCWWGG	1 cut(s)	258
FalI	AAGNNNNNCTT	4 cut(s)	150, 182, 359, 391
FaqI	GGGAC	2 cut(s)	559, 1079
FauNDI	CATATG	1 cut(s)	640
FblI	GTMKAC	1 cut(s)	846
FokI	GGATG	3 cut(s)	59, 275, 371
FspBI	CTAG	2 cut(s)	144, 1250
GlaI	GCGC	1 cut(s)	742
GsaI	CCCAGC	1 cut(s)	648
GsuI	CTGGAG	1 cut(s)	893
HaeIII	GGCC	4 cut(s)	165, 471, 774, 858
HapII	CCGG	1 cut(s)	859
HhaI	GCGC	1 cut(s)	743
Hin6I	GCGC	1 cut(s)	741
HinP1I	GCGC	1 cut(s)	741
HindIII	AAGCTT	1 cut(s)	934
HpaII	CCGG	1 cut(s)	859
HphI	GGTGA	5 cut(s)	226, 452, 1163, 1196, 1205
Hpy166II	GTNNAC	2 cut(s)	396, 847
Hpy188I	TCNGA	6 cut(s)	299, 342, 462, 810, 900, 1216
Hpy188III	TCNNGA	5 cut(s)	356, 427, 449, 906, 1331
Hpy8I	GTNNAC	2 cut(s)	396, 847
HpyAV	CCTTC	3 cut(s)	155, 692, 1334
HpyCH4III	ACNGT	1 cut(s)	1307
HpyF10VI	GCNNNNNNNGC	5 cut(s)	477, 623, 747, 937, 1009
HpyF3I	CTNAG	7 cut(s)	246, 328, 339, 609, 737, 978, 1281
HspAI	GCGC	1 cut(s)	741
Kzo9I	GATC	5 cut(s)	7, 324, 503, 717, 758
LmnI	GCTCC	1 cut(s)	1009
LweI	GCATC	6 cut(s)	121, 349, 433, 467, 982, 1144
MaeI	CTAG	2 cut(s)	144, 1250
MaeIII	GTNAC	2 cut(s)	109, 508
MalI	GATC	5 cut(s)	9, 326, 505, 719, 760
MboI	GATC	5 cut(s)	7, 324, 503, 717, 758
MboII	GAAGA	5 cut(s)	62, 170, 379, 1229, 1349
MfeI	CAATTG	1 cut(s)	435
MhlI	GDGCHC	1 cut(s)	535
MlsI	TGGCCA	1 cut(s)	471
MluCI	AATT	4 cut(s)	18, 435, 674, 887
MluNI	TGGCCA	1 cut(s)	471
MlyI	GAGTC	7 cut(s)	263, 401, 509, 581, 707, 904, 1283
MmeI	TCCRAC	5 cut(s)	70, 100, 270, 1068, 1122
Mox20I	TGGCCA	1 cut(s)	471
Mph1103I	ATGCAT	1 cut(s)	1244
MroXI	GAANNNNTTC	1 cut(s)	371
MscI	TGGCCA	1 cut(s)	471
MseI	TTAA	1 cut(s)	998
MslI	CAYNNNNRTG	1 cut(s)	963
Msp20I	TGGCCA	1 cut(s)	471
MspI	CCGG	1 cut(s)	859
MspR9I	CCNGG	2 cut(s)	25, 860
MunI	CAATTG	1 cut(s)	435
Mva1269I	GAATGC	2 cut(s)	61, 322
MvaI	CCWGG	1 cut(s)	25
MwoI	GCNNNNNNNGC	5 cut(s)	477, 623, 747, 937, 1009
NciI	CCSGG	1 cut(s)	860
NcoI	CCATGG	1 cut(s)	258
NdeI	CATATG	1 cut(s)	640
NdeII	GATC	5 cut(s)	7, 324, 503, 717, 758
NlaIV	GGNNCC	1 cut(s)	1011
NmeAIII	GCCGAG	1 cut(s)	939
NmuCI	GTSAC	1 cut(s)	508
NsiI	ATGCAT	1 cut(s)	1244
NspI	RCATGY	2 cut(s)	747, 853
PagI	TCATGA	2 cut(s)	448, 1330
PaqCI	CACCTGC	1 cut(s)	518
PceI	AGGCCT	1 cut(s)	165
PciI	ACATGT	1 cut(s)	849
PctI	GAATGC	2 cut(s)	61, 322
PdmI	GAANNNNTTC	1 cut(s)	371
PfeI	GAWTC	5 cut(s)	172, 266, 788, 815, 1019
PfoI	TCCNGGA	1 cut(s)	23
Ple19I	CGATCG	1 cut(s)	10
PleI	GAGTC	7 cut(s)	262, 400, 509, 580, 707, 903, 1283
PpsI	GAGTC	7 cut(s)	262, 400, 509, 580, 707, 903, 1283
PscI	ACATGT	1 cut(s)	849
Psp6I	CCWGG	1 cut(s)	23
PspFI	CCCAGC	1 cut(s)	644
PspGI	CCWGG	1 cut(s)	23
PspN4I	GGNNCC	1 cut(s)	1011
PspPI	GGNCC	1 cut(s)	772
PstNI	CAGNNNCTG	1 cut(s)	512
PvuI	CGATCG	1 cut(s)	10
RsaI	GTAC	1 cut(s)	735
RsaNI	GTAC	1 cut(s)	734
RseI	CAYNNNNRTG	1 cut(s)	963
SaqAI	TTAA	1 cut(s)	998
Sau3AI	GATC	5 cut(s)	7, 324, 503, 717, 758
Sau96I	GGNCC	1 cut(s)	772
SchI	GAGTC	7 cut(s)	263, 401, 509, 581, 707, 904, 1283
ScrFI	CCNGG	2 cut(s)	25, 860
SduI	GDGCHC	1 cut(s)	535
SfaNI	GCATC	6 cut(s)	121, 349, 433, 467, 982, 1144
SmiMI	CAYNNNNRTG	1 cut(s)	963
SmlI	CTYRAG	2 cut(s)	427, 1320
SmoI	CTYRAG	2 cut(s)	427, 1320
Sse9I	AATT	4 cut(s)	18, 435, 674, 887
SseBI	AGGCCT	1 cut(s)	165
SsiI	CCGC	1 cut(s)	1207
SspMI	CTAG	2 cut(s)	144, 1250
StuI	AGGCCT	1 cut(s)	165
StyD4I	CCNGG	2 cut(s)	23, 858
StyI	CCWWGG	1 cut(s)	258
TaaI	ACNGT	1 cut(s)	1307
TaqI	TCGA	4 cut(s)	129, 518, 672, 716
TasI	AATT	4 cut(s)	18, 435, 674, 887
TatI	WGTACW	1 cut(s)	733
TfiI	GAWTC	5 cut(s)	172, 266, 788, 815, 1019
Tru1I	TTAA	1 cut(s)	998
Tru9I	TTAA	1 cut(s)	998
TscAI	CASTG	6 cut(s)	369, 517, 595, 617, 1299, 1312
TseFI	GTSAC	1 cut(s)	508
Tsp45I	GTSAC	1 cut(s)	508
TspDTI	ATGAA	5 cut(s)	17, 63, 164, 1271, 1350
TspRI	CASTG	6 cut(s)	369, 517, 595, 617, 1299, 1312
XceI	RCATGY	2 cut(s)	747, 853
XmiI	GTMKAC	1 cut(s)	846
XmnI	GAANNNNTTC	1 cut(s)	371
XspI	CTAG	2 cut(s)	144, 1250
Zsp2I	ATGCAT	1 cut(s)	1244

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