Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

29528457 .. 29534895

Gene Structure 6439 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG182900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGCTTGTGTTTTTTAATTGGGCGATTAAGAAGCCAAATGTAGCTAAGCATGTTCATACATACCATATAATCCTCAAAGCATTGGGTAGAAGAAAGTTCTTTAATTATATGATGCAAGTTTTGAATGACATGAGGAGCCAAGACATACGTCTCGATTTGGAGACTGTGTCGATTGTGATGGATAGTTTTGTGAGGGCTGGACATGTCTCGAAAGCAATCCAAGTGTTCCGAAACTCGGCAGAGTTTGGGTTGGATTGCGATACTGAGTGTCTGAATGTGCTTCTGCAGTGTCTGTGTCAACGGTCTCATGTAGTGGCTGCAAATTCGTTTCTTAATTCTGTGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAATATTGTTATTGGTGGGTGGTCAAAATATGGTAGAGTTGGTGAGATGGAGAGGACTTTGGAAGCAATGGTAGCAGATGGGTTTAGTCCTGATAGTGCAACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGCTGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAGGGGAAAGGTTGCATGCCAGACACCATTACATACAATGCAATGATCTCTAACTTCATCTCTGTTGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGTGATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCGGGAAAGTGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCCTATGTAGCTATGGTCCACCATATGCTGCTATGATGATTTACCAGAAAGCAAGAAAGATTCACAACACTACTAAAGAACAGGCCTATGGGGACACACTACAACTGTTTCTAATCCAAGATTAG

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

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

311

Amino Acids

34.89

Weight (kDa)

6.6

Isoelectric Point (pI)

32.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	90 - 218	2.5e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	124 - 168	2.9e-08	PPR repeat family
PPR_3	PF13812	145 - 201	1.9e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	151 - 184	1.5e-06	PPR repeat
PPR_2	PF13041	163 - 202	8.5e-10	PPR repeat family
PPR_long	PF17177	171 - 270	1.5e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	190 - 239	3.1e-11	PPR repeat family
PPR_1	PF12854	223 - 253	1.4e-08	PPR repeat
PPR_2	PF13041	225 - 273	1.4e-11	PPR repeat family
PPR	PF01535	229 - 258	4.2e-07	PPR repeat

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: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	731
AclWI	GGATC	1 cut(s)	665
AcsI	RAATTY	1 cut(s)	322
AfiI	CCNNNNNNNGG	2 cut(s)	235, 785
AflIII	ACRYGT	1 cut(s)	202
AgsI	TTSAA	3 cut(s)	124, 361, 646
AluBI	AGCT	3 cut(s)	44, 509, 822
AluI	AGCT	3 cut(s)	44, 509, 822
Alw26I	GTCTC	4 cut(s)	155, 155, 211, 309
AlwI	GGATC	1 cut(s)	665
AlwNI	CAGNNNCTG	1 cut(s)	292
AoxI	GGCC	1 cut(s)	894
ApeKI	GCWGC	2 cut(s)	317, 839
ApoI	RAATTY	1 cut(s)	322
AspS9I	GGNCC	1 cut(s)	827
AsuC2I	CCSGG	1 cut(s)	721
AsuHPI	GGTGA	1 cut(s)	428
AvaII	GGWCC	1 cut(s)	827
BbvI	GCAGC	2 cut(s)	304, 826
BccI	CCATC	3 cut(s)	172, 415, 446
BcnI	CCSGG	1 cut(s)	721
BcoDI	GTCTC	4 cut(s)	155, 155, 211, 309
BfaI	CTAG	1 cut(s)	500
BfmI	CTRYAG	1 cut(s)	284
BisI	GCNGC	2 cut(s)	318, 840
BlpI	GCTNAGC	1 cut(s)	45
BlsI	GCNGC	2 cut(s)	319, 841
Bme1390I	CCNGG	1 cut(s)	721
Bme18I	GGWCC	1 cut(s)	827
BmgT120I	GGNCC	1 cut(s)	827
BmiI	GGNNCC	2 cut(s)	137, 810
BmrFI	CCNGG	1 cut(s)	721
BmsI	GCATC	3 cut(s)	102, 514, 724
BoxI	GACNNNNGTC	1 cut(s)	147
BpmI	CTGGAG	1 cut(s)	761
Bpu1102I	GCTNAGC	1 cut(s)	45
BpuEI	CTTGAG	1 cut(s)	512
BpuMI	CCSGG	1 cut(s)	721
BsaAI	YACGTR	1 cut(s)	372
BsaI	GGTCTC	1 cut(s)	309
BsaXI	ACNNNNNCTCC	2 cut(s)	152, 182
Bsc4I	CCNNNNNNNGG	2 cut(s)	235, 785
Bse1I	ACTGG	1 cut(s)	744
Bse3DI	GCAATG	2 cut(s)	447, 597
BseGI	GGATG	1 cut(s)	739
BseLI	CCNNNNNNNGG	2 cut(s)	235, 785
BseMI	GCAATG	2 cut(s)	447, 597
BseMII	CTCAG	1 cut(s)	255
BseNI	ACTGG	1 cut(s)	744
BseRI	GAGGAG	1 cut(s)	148
BseXI	GCAGC	2 cut(s)	304, 826
BshFI	GGCC	1 cut(s)	896
BsiSI	CCGG	1 cut(s)	720
BslFI	GGGAC	2 cut(s)	802, 917
BslI	CCNNNNNNNGG	2 cut(s)	235, 785
BsmAI	GTCTC	4 cut(s)	155, 155, 211, 309
BsmBI	CGTCTC	1 cut(s)	155
BsmFI	GGGAC	2 cut(s)	802, 917
BsnI	GGCC	1 cut(s)	896
Bso31I	GGTCTC	1 cut(s)	309
Bsp143I	GATC	3 cut(s)	511, 594, 670
Bsp1720I	GCTNAGC	1 cut(s)	45
BspACI	CCGC	1 cut(s)	731
BspANI	GGCC	1 cut(s)	896
BspCNI	CTCAG	1 cut(s)	256
BspLI	GGNNCC	2 cut(s)	137, 810
BspMAI	CTGCAG	1 cut(s)	288
BspPI	GGATC	1 cut(s)	665
BspQI	GCTCTTC	1 cut(s)	499
BspTNI	GGTCTC	1 cut(s)	309
BsrDI	GCAATG	2 cut(s)	447, 597
BsrI	ACTGG	1 cut(s)	744
BssMI	GATC	3 cut(s)	511, 594, 670
Bst4CI	ACNGT	3 cut(s)	166, 303, 918
Bst6I	CTCTTC	1 cut(s)	499
BstBAI	YACGTR	1 cut(s)	372
BstC8I	GCNNGC	1 cut(s)	566
BstDEI	CTNAG	2 cut(s)	45, 264
BstF5I	GGATG	1 cut(s)	739
BstKTI	GATC	3 cut(s)	514, 597, 673
BstMAI	GTCTC	4 cut(s)	155, 155, 211, 309
BstMBI	GATC	3 cut(s)	511, 594, 670
BstMWI	GCNNNNNNNGC	1 cut(s)	446
BstNSI	RCATGY	3 cut(s)	53, 206, 568
BstPAI	GACNNNNGTC	1 cut(s)	147
BstSCI	CCNGG	1 cut(s)	719
BstSFI	CTRYAG	1 cut(s)	284
BstSNI	TACGTA	1 cut(s)	372
BstV1I	GCAGC	2 cut(s)	304, 826
BsuRI	GGCC	1 cut(s)	896
BtsCI	GGATG	1 cut(s)	739
BtsI	GCAGTG	1 cut(s)	293
BtsIMutI	CAGTG	2 cut(s)	293, 737
Cac8I	GCNNGC	1 cut(s)	566
CaiI	CAGNNNCTG	1 cut(s)	292
Cfr13I	GGNCC	1 cut(s)	827
CviAII	CATG	6 cut(s)	50, 130, 203, 308, 547, 565
CviJI	RGCY	9 cut(s)	34, 44, 138, 197, 317, 509, 719, 822, 896
CviKI_1	RGCY	9 cut(s)	34, 44, 138, 197, 317, 509, 719, 822, 896
DdeI	CTNAG	2 cut(s)	45, 264
DpnI	GATC	3 cut(s)	513, 596, 672
DpnII	GATC	3 cut(s)	511, 594, 670
Eam1104I	CTCTTC	1 cut(s)	499
EarI	CTCTTC	1 cut(s)	499
EciI	GGCGGA	1 cut(s)	746
Eco105I	TACGTA	1 cut(s)	372
Eco147I	AGGCCT	1 cut(s)	896
Eco31I	GGTCTC	1 cut(s)	309
Eco47I	GGWCC	1 cut(s)	827
Esp3I	CGTCTC	1 cut(s)	155
FaeI	CATG	6 cut(s)	53, 133, 206, 311, 550, 568
FaqI	GGGAC	2 cut(s)	802, 917
FatI	CATG	6 cut(s)	49, 129, 202, 307, 546, 564
FauNDI	CATATG	1 cut(s)	835
Fnu4HI	GCNGC	2 cut(s)	318, 840
FokI	GGATG	1 cut(s)	746
Fsp4HI	GCNGC	2 cut(s)	318, 840
FspBI	CTAG	1 cut(s)	500
GluI	GCNGC	2 cut(s)	318, 840
GsuI	CTGGAG	1 cut(s)	761
HaeIII	GGCC	1 cut(s)	896
HapII	CCGG	1 cut(s)	720
Hin1II	CATG	6 cut(s)	53, 133, 206, 311, 550, 568
HincII	GTYRAC	1 cut(s)	299
HindII	GTYRAC	1 cut(s)	299
HinfI	GANTC	2 cut(s)	357, 871
HpaII	CCGG	1 cut(s)	720
HphI	GGTGA	1 cut(s)	428
Hpy166II	GTNNAC	3 cut(s)	299, 637, 830
Hpy188I	TCNGA	3 cut(s)	230, 273, 516
Hpy188III	TCNNGA	5 cut(s)	152, 208, 464, 491, 646
Hpy8I	GTNNAC	3 cut(s)	299, 637, 830
HpyAV	CCTTC	2 cut(s)	337, 544
HpyCH4III	ACNGT	3 cut(s)	166, 303, 918
HpyCH4IV	ACGT	2 cut(s)	148, 371
HpyCH4V	TGCA	8 cut(s)	115, 286, 320, 473, 527, 564, 590, 737
HpyF10VI	GCNNNNNNNGC	1 cut(s)	446
HpyF3I	CTNAG	2 cut(s)	45, 264
HpySE526I	ACGT	2 cut(s)	148, 371
Hsp92II	CATG	6 cut(s)	53, 133, 206, 311, 550, 568
Kzo9I	GATC	3 cut(s)	511, 594, 670
LguI	GCTCTTC	1 cut(s)	499
LmnI	GCTCC	1 cut(s)	135
LpnPI	CCDG	8 cut(s)	183, 477, 582, 690, 725, 733, 869, 878
Lsp1109I	GCAGC	2 cut(s)	304, 826
LweI	GCATC	3 cut(s)	102, 514, 724
MaeI	CTAG	1 cut(s)	500
MaeII	ACGT	2 cut(s)	148, 371
MaeIII	GTNAC	1 cut(s)	482
MalI	GATC	3 cut(s)	513, 596, 672
MboI	GATC	3 cut(s)	511, 594, 670
MboII	GAAGA	2 cut(s)	102, 516
MluCI	AATT	5 cut(s)	16, 103, 322, 334, 695
MmeI	TCCRAC	1 cut(s)	231
MnlI	CCTC	7 cut(s)	83, 126, 186, 420, 487, 761, 808
MseI	TTAA	6 cut(s)	15, 27, 102, 333, 714, 761
MspI	CCGG	1 cut(s)	720
MspR9I	CCNGG	1 cut(s)	721
MwoI	GCNNNNNNNGC	1 cut(s)	446
NciI	CCSGG	1 cut(s)	721
NdeI	CATATG	1 cut(s)	835
NdeII	GATC	3 cut(s)	511, 594, 670
NlaIII	CATG	6 cut(s)	53, 133, 206, 311, 550, 568
NlaIV	GGNNCC	2 cut(s)	137, 810
NmeAIII	GCCGAG	1 cut(s)	215
NspI	RCATGY	3 cut(s)	53, 206, 568
PaeI	GCATGC	1 cut(s)	568
PceI	AGGCCT	1 cut(s)	896
PciI	ACATGT	1 cut(s)	202
PciSI	GCTCTTC	1 cut(s)	499
PfeI	GAWTC	2 cut(s)	357, 871
PflFI	GACNNNGTC	1 cut(s)	166
PkrI	GCNGC	2 cut(s)	319, 841
Ppu21I	YACGTR	1 cut(s)	372
PscI	ACATGT	1 cut(s)	202
PshAI	GACNNNNGTC	1 cut(s)	147
PspN4I	GGNNCC	2 cut(s)	137, 810
PspPI	GGNCC	1 cut(s)	827
PstI	CTGCAG	1 cut(s)	288
PstNI	CAGNNNCTG	1 cut(s)	292
PsyI	GACNNNGTC	1 cut(s)	166
SapI	GCTCTTC	1 cut(s)	499
SaqAI	TTAA	6 cut(s)	15, 27, 102, 333, 714, 761
SatI	GCNGC	2 cut(s)	318, 840
Sau3AI	GATC	3 cut(s)	511, 594, 670
Sau96I	GGNCC	1 cut(s)	827
ScrFI	CCNGG	1 cut(s)	721
SetI	ASST	7 cut(s)	46, 151, 374, 511, 562, 800, 824
SfaNI	GCATC	3 cut(s)	102, 514, 724
SfcI	CTRYAG	1 cut(s)	284
SinI	GGWCC	1 cut(s)	827
SmlI	CTYRAG	1 cut(s)	491
SmoI	CTYRAG	1 cut(s)	491
SnaBI	TACGTA	1 cut(s)	372
SphI	GCATGC	1 cut(s)	568
Sse9I	AATT	5 cut(s)	16, 103, 322, 334, 695
SseBI	AGGCCT	1 cut(s)	896
SsiI	CCGC	1 cut(s)	731
SspI	AATATT	2 cut(s)	379, 622
SspMI	CTAG	1 cut(s)	500
StuI	AGGCCT	1 cut(s)	896
StyD4I	CCNGG	1 cut(s)	719
TaaI	ACNGT	3 cut(s)	166, 303, 918
TaiI	ACGT	2 cut(s)	151, 374
TaqI	TCGA	5 cut(s)	153, 170, 209, 656, 766
TasI	AATT	5 cut(s)	16, 103, 322, 334, 695
TfiI	GAWTC	2 cut(s)	357, 871
Tru1I	TTAA	6 cut(s)	15, 27, 102, 333, 714, 761
Tru9I	TTAA	6 cut(s)	15, 27, 102, 333, 714, 761
TscAI	CASTG	2 cut(s)	293, 744
TseI	GCWGC	2 cut(s)	317, 839
TspDTI	ATGAA	4 cut(s)	44, 563, 595, 642
TspRI	CASTG	2 cut(s)	293, 744
Tth111I	GACNNNGTC	1 cut(s)	166
VpaK11BI	GGWCC	1 cut(s)	827
XapI	RAATTY	1 cut(s)	322
XceI	RCATGY	3 cut(s)	53, 206, 568
XspI	CTAG	1 cut(s)	500

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