Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Reverse (-)

293031 .. 297203

Gene Structure 4173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG001600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGGGTTTAGCTTCACATGGGAGAAACCTTGCATTTCAGATTGGTAATCCAAAATCAAGGCTTTTGATTCGGGTCCACTACTGCAGTTATAAATCAGAGAGTAAAAAGCAAGTGGATGATGAAACAGTGAGGGAAATCTGTACCATTCTGAAGCGAAGCAGAGAGTGGGAGTCCGTGTTGAGCTCATCAGGGTTTCCCAAGAAGCTAAACCCTTGTGTGGTTCGATCCGTTCTTCAACAACACCACCAGGTTGGTGACCCAGAAAGACTTTTAAGTTTCTTTGATTGGTCTTGTGCCCAATTGGGTGTGCTCCCAAATTTGCATTCTTTTTCGATTATGGCTGTTGTTTTGTGTAATTCCAAGCTTTTTGGGCATGCCCATGGTGTGTTGGAGAGAATGGTTAGGACCCGGAAGCCGGCTTTAGAAGTTTTGGATTGTGTTGTTAGGTGTTTTAGAGAGTTTGAGGGGTCTGATATGGTGGTTTTTGAGATTTTGATTAATGTGTTTACGATGGGGGGTTGGTTTTATGAGGTTGCTGATGTGTTTTTGGGTGTTAGGAGTGTTGGGATTTCGCCAAGATTGGAATGCTGTAATTCTCTGTTGAATGAGTTGTTGAAGGGTAATAGGATGAGGCTGTTCTGGAAAGTGTATGATGGGATGTTAGAGGCTAAGATTGAGCTGGATTTTTACACTTATAGCAATGTGATCAATGCACATTGTAAGTTTGGGGATGTTAGGCAGGGTAAGAAGCTACTGTTTGAGATGGTAGAGAAGGGCTGTAATCCGAATTTGAGTACCTTCAATGTGGTGATTGATGGATTGTGTAGAAGTAGGGCTGTTGATGAAGCCATTGAGTTGAAAAAATCGATGGTTGAGAAGGGATTGACACCTGATAGGACTGGTCGCCAACCTCATTTACATCACTGGATTCTCCGATCTCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00260 ko00261 ko00270 ko00300 ko01100 ko01110 ko01120 ko01130 ko01210 ko01230 map00260 map00261 map00270 map00300 map01100 map01110 map01120 map01130 map01210 map01230

Pfam Domains

Protein Families

Mem_trans PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

314

Amino Acids

35.88

Weight (kDa)

8.89

Isoelectric Point (pI)

35.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	196 - 241	1.2e-08	PPR repeat family
PPR_long	PF17177	198 - 298	4.5e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	217 - 272	1.5e-07	Pentatricopeptide repeat domain
PPR	PF01535	230 - 260	1.1e-06	PPR repeat
PPR_2	PF13041	231 - 276	8.4e-13	PPR repeat family
PPR_1	PF12854	258 - 291	6.1e-10	PPR repeat
PPR	PF01535	265 - 295	2.8e-06	PPR repeat
PPR_2	PF13041	266 - 298	1.6e-07	PPR repeat 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: OG0001276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G61990
fragaria_vesca	FvH4_5g09340 FvH4_5g09340 FvH4_5g09340 FvH4_5g09340
malus_domestica	MD06G1131900.v1.1 MD14G1148300.v1.1
prunus_persica	Prupe.5G142900_v2.0.a1 Prupe.5G142900_v2.0.a1
pyrus_communis	pycom06g12350 pycom14g12300
rosa_chinensis	RchiOBHm_Chr1g0325241 RchiOBHm_Chr1g0325261 RchiOBHm_Chr2g0162681 RchiOBHm_Chr7g0188811 RchiOBHm_Chr7g0229441
rosa_laevigata	RLG00000004657 RLG00000028121 RLG00000028122 RLG00000031426 RLG00000035825
rosa_multiflora	Rmu_sc0001621.1_g000013 Rmu_sc0001918.1_g000006 Rmu_sc0004279.1_g000018 Rmu_sc0034360.1_g000001 Rmu_sc0034361.1_g000001
rosa_roxburghii	Rroxscaffold_3G00266000 Rroxscaffold_5G00381140
rosa_rugosa	Rorug02G0360500 Rorug05G0369000 Rorug06G0494100 Rorug07G0156300
rosa_samantha	Rh1BG033100 Rh2CG348200 Rh2CG348300 Rh4AG001800 Rh4AG163800 Rh4BG001600 Rh4BG400000 Rh4BG400100 Rh4CG415000 Rh4CG415100 Rh6DG332400 Rh6DG332500 Rh7AG098900 Rh7AG408500 Rh7BG100600 Rh7CG102100 Rh7CG477400 Rh7DG100700 Rh7DG406300 Rh7DG406400 Rh7DG446700
rosa_wichuraiana	Rw0G022150 Rw7G008520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	90
AclWI	GGATC	1 cut(s)	219
AcsI	RAATTY	2 cut(s)	316, 787
AcuI	CTGAAG	1 cut(s)	170
AfaI	GTAC	2 cut(s)	142, 796
AfiI	CCNNNNNNNGG	2 cut(s)	217, 415
AgsI	TTSAA	5 cut(s)	236, 604, 616, 802, 859
AjnI	CCWGG	1 cut(s)	246
AjuI	GAANNNNNNNTTGG	2 cut(s)	307, 339
AluBI	AGCT	6 cut(s)	11, 183, 205, 364, 679, 751
AluI	AGCT	6 cut(s)	11, 183, 205, 364, 679, 751
Alw21I	GWGCWC	2 cut(s)	185, 312
AlwI	GGATC	1 cut(s)	219
ApoI	RAATTY	2 cut(s)	316, 787
AseI	ATTAAT	1 cut(s)	498
AspS9I	GGNCC	2 cut(s)	73, 405
AsuC2I	CCSGG	1 cut(s)	409
AsuHPI	GGTGA	2 cut(s)	266, 820
AvaII	GGWCC	2 cut(s)	73, 405
BaeGI	GKGCMC	1 cut(s)	298
BanII	GRGCYC	1 cut(s)	185
Bbv12I	GWGCWC	2 cut(s)	185, 312
BccI	CCATC	5 cut(s)	505, 647, 757, 809, 862
BciT130I	CCWGG	1 cut(s)	248
BclI	TGATCA	1 cut(s)	705
BcnI	CCSGG	1 cut(s)	409
BfmI	CTRYAG	1 cut(s)	82
Bme1390I	CCNGG	2 cut(s)	248, 409
Bme18I	GGWCC	2 cut(s)	73, 405
BmgT120I	GGNCC	2 cut(s)	73, 405
BmiI	GGNNCC	2 cut(s)	74, 407
BmrFI	CCNGG	2 cut(s)	248, 409
BpuMI	CCSGG	1 cut(s)	409
Bsa29I	ATCGAT	1 cut(s)	866
BsaJI	CCNNGG	1 cut(s)	379
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	2 cut(s)	217, 415
Bse118I	RCCGGY	1 cut(s)	415
Bse1I	ACTGG	2 cut(s)	904, 929
Bse3DI	GCAATG	1 cut(s)	706
BseBI	CCWGG	1 cut(s)	248
BseCI	ATCGAT	1 cut(s)	866
BseDI	CCNNGG	1 cut(s)	379
BseGI	GGATG	4 cut(s)	121, 633, 663, 736
BseLI	CCNNNNNNNGG	2 cut(s)	217, 415
BseMI	GCAATG	1 cut(s)	706
BseNI	ACTGG	2 cut(s)	904, 929
BseSI	GKGCMC	1 cut(s)	298
BshVI	ATCGAT	1 cut(s)	866
BsiHKAI	GWGCWC	2 cut(s)	185, 312
BsiSI	CCGG	2 cut(s)	409, 416
BslI	CCNNNNNNNGG	2 cut(s)	217, 415
BsmI	GAATGC	2 cut(s)	322, 590
Bsp1286I	GDGCHC	3 cut(s)	185, 298, 312
Bsp143I	GATC	3 cut(s)	224, 705, 935
Bsp19I	CCATGG	1 cut(s)	379
BspDI	ATCGAT	1 cut(s)	866
BspLI	GGNNCC	2 cut(s)	74, 407
BspMAI	CTGCAG	1 cut(s)	86
BspPI	GGATC	1 cut(s)	219
BsrDI	GCAATG	1 cut(s)	706
BsrFI	RCCGGY	1 cut(s)	415
BsrI	ACTGG	2 cut(s)	904, 929
BssAI	RCCGGY	1 cut(s)	415
BssECI	CCNNGG	1 cut(s)	379
BssMI	GATC	3 cut(s)	224, 705, 935
BssT1I	CCWWGG	1 cut(s)	379
Bst2UI	CCWGG	1 cut(s)	248
Bst4CI	ACNGT	2 cut(s)	127, 756
BstC8I	GCNNGC	2 cut(s)	375, 417
BstDEI	CTNAG	1 cut(s)	669
BstDSI	CCRYGG	1 cut(s)	379
BstEII	GGTNACC	1 cut(s)	254
BstF5I	GGATG	4 cut(s)	121, 633, 663, 736
BstKTI	GATC	3 cut(s)	227, 708, 938
BstMBI	GATC	3 cut(s)	224, 705, 935
BstMWI	GCNNNNNNNGC	1 cut(s)	370
BstNI	CCWGG	1 cut(s)	248
BstNSI	RCATGY	1 cut(s)	377
BstPI	GGTNACC	1 cut(s)	254
BstSCI	CCNGG	2 cut(s)	246, 407
BstSFI	CTRYAG	1 cut(s)	82
BstSLI	GKGCMC	1 cut(s)	298
BstXI	CCANNNNNNTGG	1 cut(s)	251
Bsu15I	ATCGAT	1 cut(s)	866
BsuTUI	ATCGAT	1 cut(s)	866
BtgI	CCRYGG	1 cut(s)	379
BtsCI	GGATG	4 cut(s)	121, 633, 663, 736
BtsIMutI	CAGTG	2 cut(s)	132, 922
Cac8I	GCNNGC	2 cut(s)	375, 417
Cfr10I	RCCGGY	1 cut(s)	415
Cfr13I	GGNCC	2 cut(s)	73, 405
ClaI	ATCGAT	1 cut(s)	866
CsiI	ACCWGGT	1 cut(s)	246
Csp6I	GTAC	2 cut(s)	141, 795
CviAII	CATG	3 cut(s)	17, 374, 380
CviQI	GTAC	2 cut(s)	141, 795
DdeI	CTNAG	1 cut(s)	669
DpnI	GATC	3 cut(s)	226, 707, 937
DpnII	GATC	3 cut(s)	224, 705, 935
Ecl136II	GAGCTC	1 cut(s)	183
Eco130I	CCWWGG	1 cut(s)	379
Eco24I	GRGCYC	1 cut(s)	185
Eco47I	GGWCC	2 cut(s)	73, 405
Eco53kI	GAGCTC	1 cut(s)	183
Eco57I	CTGAAG	1 cut(s)	170
Eco91I	GGTNACC	1 cut(s)	254
EcoICRI	GAGCTC	1 cut(s)	183
EcoO109I	RGGNCCY	1 cut(s)	405
EcoO65I	GGTNACC	1 cut(s)	254
EcoRII	CCWGG	1 cut(s)	246
EcoT14I	CCWWGG	1 cut(s)	379
EcoT38I	GRGCYC	1 cut(s)	185
ErhI	CCWWGG	1 cut(s)	379
FaeI	CATG	3 cut(s)	20, 377, 383
FaiI	YATR	9 cut(s)	18, 90, 338, 375, 381, 476, 528, 651, 696
FatI	CATG	3 cut(s)	16, 373, 379
FbaI	TGATCA	1 cut(s)	705
FokI	GGATG	4 cut(s)	128, 640, 670, 743
FriOI	GRGCYC	1 cut(s)	185
HapII	CCGG	2 cut(s)	409, 416
Hin1II	CATG	3 cut(s)	20, 377, 383
HindIII	AAGCTT	1 cut(s)	362
HinfI	GANTC	3 cut(s)	67, 170, 928
HpaII	CCGG	2 cut(s)	409, 416
HphI	GGTGA	2 cut(s)	266, 820
Hpy166II	GTNNAC	2 cut(s)	76, 507
Hpy188I	TCNGA	6 cut(s)	39, 97, 150, 472, 786, 935
Hpy188III	TCNNGA	1 cut(s)	640
Hpy8I	GTNNAC	2 cut(s)	76, 507
HpyAV	CCTTC	4 cut(s)	610, 766, 808, 871
HpyCH4III	ACNGT	2 cut(s)	127, 756
HpyCH4V	TGCA	4 cut(s)	32, 84, 322, 713
HpyF10VI	GCNNNNNNNGC	1 cut(s)	370
HpyF3I	CTNAG	1 cut(s)	669
Hsp92II	CATG	3 cut(s)	20, 377, 383
KroI	GCCGGC	1 cut(s)	415
KroNI	GCCGGC	1 cut(s)	417
Ksp22I	TGATCA	1 cut(s)	705
Kzo9I	GATC	3 cut(s)	224, 705, 935
LmnI	GCTCC	1 cut(s)	315
MabI	ACCWGGT	1 cut(s)	246
MaeIII	GTNAC	1 cut(s)	254
MalI	GATC	3 cut(s)	226, 707, 937
MboI	GATC	3 cut(s)	224, 705, 935
MboII	GAAGA	1 cut(s)	224
MfeI	CAATTG	1 cut(s)	299
MhlI	GDGCHC	3 cut(s)	185, 298, 312
MluCI	AATT	5 cut(s)	299, 316, 355, 592, 787
MlyI	GAGTC	1 cut(s)	179
MmeI	TCCRAC	1 cut(s)	369
MnlI	CCTC	6 cut(s)	123, 457, 523, 624, 658, 921
MroNI	GCCGGC	1 cut(s)	415
MseI	TTAA	2 cut(s)	272, 498
MslI	CAYNNNNRTG	1 cut(s)	378
MspI	CCGG	2 cut(s)	409, 416
MspR9I	CCNGG	2 cut(s)	248, 409
MunI	CAATTG	1 cut(s)	299
Mva1269I	GAATGC	2 cut(s)	322, 590
MvaI	CCWGG	1 cut(s)	248
MwoI	GCNNNNNNNGC	1 cut(s)	370
NaeI	GCCGGC	1 cut(s)	417
NciI	CCSGG	1 cut(s)	409
NcoI	CCATGG	1 cut(s)	379
NdeII	GATC	3 cut(s)	224, 705, 935
NgoMIV	GCCGGC	1 cut(s)	415
NlaIII	CATG	3 cut(s)	20, 377, 383
NlaIV	GGNNCC	2 cut(s)	74, 407
NmuCI	GTSAC	1 cut(s)	254
NspI	RCATGY	1 cut(s)	377
PaeI	GCATGC	1 cut(s)	377
PctI	GAATGC	2 cut(s)	322, 590
PdiI	GCCGGC	1 cut(s)	417
PfeI	GAWTC	2 cut(s)	67, 928
PleI	GAGTC	1 cut(s)	178
PpsI	GAGTC	1 cut(s)	178
PpuMI	RGGWCCY	1 cut(s)	405
PshBI	ATTAAT	1 cut(s)	498
PsiI	TTATAA	1 cut(s)	90
Psp124BI	GAGCTC	1 cut(s)	185
Psp5II	RGGWCCY	1 cut(s)	405
Psp6I	CCWGG	1 cut(s)	246
PspEI	GGTNACC	1 cut(s)	254
PspGI	CCWGG	1 cut(s)	246
PspN4I	GGNNCC	2 cut(s)	74, 407
PspPI	GGNCC	2 cut(s)	73, 405
PspPPI	RGGWCCY	1 cut(s)	405
PstI	CTGCAG	1 cut(s)	86
RsaI	GTAC	2 cut(s)	142, 796
RsaNI	GTAC	2 cut(s)	141, 795
RseI	CAYNNNNRTG	1 cut(s)	378
SacI	GAGCTC	1 cut(s)	185
SaqAI	TTAA	2 cut(s)	272, 498
Sau3AI	GATC	3 cut(s)	224, 705, 935
Sau96I	GGNCC	2 cut(s)	73, 405
SchI	GAGTC	1 cut(s)	179
ScrFI	CCNGG	2 cut(s)	248, 409
SduI	GDGCHC	3 cut(s)	185, 298, 312
SexAI	ACCWGGT	1 cut(s)	246
SfcI	CTRYAG	1 cut(s)	82
SinI	GGWCC	2 cut(s)	73, 405
SmiMI	CAYNNNNRTG	1 cut(s)	378
SphI	GCATGC	1 cut(s)	377
Sse9I	AATT	5 cut(s)	299, 316, 355, 592, 787
SstI	GAGCTC	1 cut(s)	185
StyD4I	CCNGG	2 cut(s)	246, 407
StyI	CCWWGG	1 cut(s)	379
TaaI	ACNGT	2 cut(s)	127, 756
TaqI	TCGA	3 cut(s)	223, 332, 866
TasI	AATT	5 cut(s)	299, 316, 355, 592, 787
TfiI	GAWTC	2 cut(s)	67, 928
Tru1I	TTAA	2 cut(s)	272, 498
Tru9I	TTAA	2 cut(s)	272, 498
TscAI	CASTG	2 cut(s)	132, 929
TseFI	GTSAC	1 cut(s)	254
Tsp45I	GTSAC	1 cut(s)	254
TspDTI	ATGAA	2 cut(s)	135, 858
TspGWI	ACGGA	2 cut(s)	163, 217
TspRI	CASTG	2 cut(s)	132, 929
VpaK11BI	GGWCC	2 cut(s)	73, 405
VspI	ATTAAT	1 cut(s)	498
XapI	RAATTY	2 cut(s)	316, 787
XceI	RCATGY	1 cut(s)	377

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