Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0007952

Physical Location & Seq

Genomic Coordinates Forward (+)

58570856 .. 58575338

Gene Structure 4483 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG402400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGAGGATTATAACATTGTATGGTAAGGCTGGGATGACTAAGCATGCTATTGATACTTTTTGTGATATGCATTTATATGGTTGTTCTAGGACTGTTAAGTCATACAATGCTACACTTAAGGTTTTGACTCAAACTCGTGATTTAAGAGCAATTGAGGCATTTGTGAGTGACATTCCACAGCAATTTGACATTCAGTTGGACGTATATTCAGTTAATATTGTTATCAAGGCTTTTTGTGAAATGGGGATTTTGACTAAAGCATATGTGATCATGGTAGAGATGGAAAAGTTGGGAATAAGACCGGATGTCATTACGTATACAACTCTGATATCAGCATTTTATAAACATAGGCGGTGGGAGATTGCTAATGGGTTATGGAATCTTATGGTCCTGAAGAGGTGTTTACCTAATCTTGCAACTTTCAATGTTCGAATCCAATTTTTGGTTAATACAAAGCGAGCTTGGGAAGCTAATAGAGTTTTGAAGATGATGCAGAACATTGGGATAGCACCTGATGAAGTTACATTTAATTTGGTGATCAAAGGGTTTTGCCAGGCTGGGAAACTTGAAATGGCAAAAAGGGTATATTCTGCTCTACATGACAAGGGATACAAGCCCAATGTTAAAATTTATCAAACCATGATTCATTATCTTTGTAGAGAAAGGGATTTTGATCTGGCATATACATTGTGTAGAGATTCCATGCAGAAAAATTGGTATCCAAATGTGGATACCATTCATACATTGCTAAAAGGCCTGCGGATGAAAAGTCAGCTTGGCAAGGCCAAGGCTATCATGACGTTGGTTCGTAGAAGGGTGCCTCCATTTCCTTCAAAACAGTTGAGTTCTTTGCAATCCATACTAACCAAGAGTTGA

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_1 PPR_2 PPR_3

Protein Analysis

291

Amino Acids

33.65

Weight (kDa)

9.78

Isoelectric Point (pI)

39.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	67 - 115	3.2e-12	PPR repeat family
PPR_3	PF13812	90 - 149	4.1e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	101 - 146	8.9e-11	PPR repeat family
PPR_2	PF13041	140 - 185	1.3e-07	PPR repeat family
TPR_24	PF23276	157 - 237	3.3e-06	Fungal tetratrico peptide repeats
PPR_3	PF13812	159 - 216	2.6e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	168 - 195	5.1e-08	PPR repeat
PPR_2	PF13041	171 - 208	9.9e-09	PPR repeat family
PPR_2	PF13041	206 - 253	1.5e-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

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Publication-ready

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Orthologous Genes (Group: OG0007952)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80150 AT1G80150
fragaria_vesca	FvH4_6g30020 FvH4_6g30020 FvH4_6g30020 FvH4_6g30020 FvH4_6g30020 FvH4_6g30020
malus_domestica	MD00G1100500.v1.1 MD17G1208400.v1.1
prunus_persica	Prupe.3G083000_v2.0.a1
pyrus_communis	pycom09g13930 pycom17g21110
rosa_chinensis	RchiOBHm_Chr2g0136051
rosa_laevigata	RLG00000019499
rosa_multiflora	Rmu_sc0002986.1_g000007 Rmu_sc0039038.1_g000001
rosa_roxburghii	Rroxscaffold_2G00108620
rosa_rugosa	Rorug02G0327800
rosa_samantha	Rh2AG379600 Rh2BG386100 Rh2CG365500 Rh2DG402400
rosa_wichuraiana	Rw2G030940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	11, 342
AasI	GACNNNNNNGTC	1 cut(s)	97
AccB1I	GGYRCC	1 cut(s)	817
AccB7I	CCANNNNNTGG	1 cut(s)	442
AccI	GTMKAC	1 cut(s)	317
AciI	CCGC	2 cut(s)	352, 760
AcsI	RAATTY	1 cut(s)	627
AcuI	CTGAAG	1 cut(s)	413
AfiI	CCNNNNNNNGG	1 cut(s)	442
AflII	CTTAAG	1 cut(s)	116
AgsI	TTSAA	4 cut(s)	424, 484, 569, 834
AhdI	GACNNNNNGTC	1 cut(s)	305
AjnI	CCWGG	1 cut(s)	552
AluBI	AGCT	3 cut(s)	461, 470, 775
AluI	AGCT	3 cut(s)	461, 470, 775
AoxI	GGCC	2 cut(s)	754, 783
ApoI	RAATTY	1 cut(s)	627
AspS9I	GGNCC	1 cut(s)	388
AsuHPI	GGTGA	1 cut(s)	547
AsuII	TTCGAA	1 cut(s)	430
AvaII	GGWCC	1 cut(s)	388
BanI	GGYRCC	1 cut(s)	817
BauI	CACGAG	1 cut(s)	135
BccI	CCATC	1 cut(s)	274
BciT130I	CCWGG	1 cut(s)	554
BciVI	GTATCC	3 cut(s)	602, 724, 729
BclI	TGATCA	2 cut(s)	267, 537
BfaI	CTAG	1 cut(s)	87
BfrI	CTTAAG	1 cut(s)	116
BfuI	GTATCC	3 cut(s)	602, 724, 729
Bme1390I	CCNGG	1 cut(s)	554
Bme18I	GGWCC	1 cut(s)	388
BmeRI	GACNNNNNGTC	1 cut(s)	305
BmgT120I	GGNCC	1 cut(s)	388
BmiI	GGNNCC	1 cut(s)	819
BmrFI	CCNGG	1 cut(s)	554
BmsI	GCATC	1 cut(s)	480
Bpu14I	TTCGAA	1 cut(s)	430
BsaAI	YACGTR	1 cut(s)	315
BsaBI	GATNNNNATC	1 cut(s)	672
BsaJI	CCNNGG	1 cut(s)	786
BsaWI	WCCGGW	1 cut(s)	301
Bsc4I	CCNNNNNNNGG	1 cut(s)	442
Bse3DI	GCAATG	1 cut(s)	743
Bse8I	GATNNNNATC	1 cut(s)	672
BseBI	CCWGG	1 cut(s)	554
BseDI	CCNNGG	1 cut(s)	786
BseGI	GGATG	3 cut(s)	39, 310, 768
BseJI	GATNNNNATC	1 cut(s)	672
BseLI	CCNNNNNNNGG	1 cut(s)	442
BseMI	GCAATG	1 cut(s)	743
BseYI	CCCAGC	2 cut(s)	29, 557
BshFI	GGCC	2 cut(s)	756, 785
BshNI	GGYRCC	1 cut(s)	817
BsiSI	CCGG	1 cut(s)	302
BslI	CCNNNNNNNGG	1 cut(s)	442
BsnI	GGCC	2 cut(s)	756, 785
Bsp119I	TTCGAA	1 cut(s)	430
Bsp143I	GATC	3 cut(s)	267, 537, 673
BspACI	CCGC	2 cut(s)	352, 760
BspANI	GGCC	2 cut(s)	756, 785
BspHI	TCATGA	1 cut(s)	795
BspLI	GGNNCC	1 cut(s)	819
BspT104I	TTCGAA	1 cut(s)	430
BspT107I	GGYRCC	1 cut(s)	817
BspTI	CTTAAG	1 cut(s)	116
BsrDI	GCAATG	1 cut(s)	743
BssECI	CCNNGG	1 cut(s)	786
BssMI	GATC	3 cut(s)	267, 537, 673
BssNAI	GTATAC	1 cut(s)	318
BssSI	CACGAG	1 cut(s)	135
BssT1I	CCWWGG	1 cut(s)	786
Bst1107I	GTATAC	1 cut(s)	318
Bst2BI	CACGAG	1 cut(s)	135
Bst2UI	CCWGG	1 cut(s)	554
Bst4CI	ACNGT	2 cut(s)	94, 840
Bst6I	CTCTTC	1 cut(s)	389
BstAFI	CTTAAG	1 cut(s)	116
BstBAI	YACGTR	1 cut(s)	315
BstBI	TTCGAA	1 cut(s)	430
BstC8I	GCNNGC	3 cut(s)	45, 459, 758
BstDEI	CTNAG	1 cut(s)	39
BstF5I	GGATG	3 cut(s)	39, 310, 768
BstKTI	GATC	3 cut(s)	270, 540, 676
BstMBI	GATC	3 cut(s)	267, 537, 673
BstMWI	GCNNNNNNNGC	2 cut(s)	155, 467
BstNI	CCWGG	1 cut(s)	554
BstNSI	RCATGY	1 cut(s)	47
BstSCI	CCNGG	1 cut(s)	552
BstSNI	TACGTA	1 cut(s)	315
BstZ17I	GTATAC	1 cut(s)	318
BsuI	GTATCC	3 cut(s)	602, 724, 729
BsuRI	GGCC	2 cut(s)	756, 785
BtsCI	GGATG	3 cut(s)	39, 310, 768
Cac8I	GCNNGC	3 cut(s)	45, 459, 758
CciI	TCATGA	1 cut(s)	795
Cfr13I	GGNCC	1 cut(s)	388
CviAII	CATG	6 cut(s)	44, 271, 599, 640, 703, 796
DdeI	CTNAG	1 cut(s)	39
DpnI	GATC	3 cut(s)	269, 539, 675
DpnII	GATC	3 cut(s)	267, 537, 673
DrdI	GACNNNNNNGTC	1 cut(s)	97
DriI	GACNNNNNGTC	1 cut(s)	305
DseDI	GACNNNNNNGTC	1 cut(s)	97
Eam1104I	CTCTTC	1 cut(s)	389
Eam1105I	GACNNNNNGTC	1 cut(s)	305
EarI	CTCTTC	1 cut(s)	389
Eco105I	TACGTA	1 cut(s)	315
Eco130I	CCWWGG	1 cut(s)	786
Eco147I	AGGCCT	1 cut(s)	756
Eco32I	GATATC	1 cut(s)	330
Eco47I	GGWCC	1 cut(s)	388
Eco57I	CTGAAG	1 cut(s)	413
EcoRII	CCWGG	1 cut(s)	552
EcoRV	GATATC	1 cut(s)	330
EcoT14I	CCWWGG	1 cut(s)	786
EcoT22I	ATGCAT	1 cut(s)	72
ErhI	CCWWGG	1 cut(s)	786
FaeI	CATG	6 cut(s)	47, 274, 602, 643, 706, 799
FatI	CATG	6 cut(s)	43, 270, 598, 639, 702, 795
FauNDI	CATATG	1 cut(s)	262
FbaI	TGATCA	2 cut(s)	267, 537
FblI	GTMKAC	1 cut(s)	317
FokI	GGATG	3 cut(s)	46, 317, 775
FspBI	CTAG	1 cut(s)	87
GsaI	CCCAGC	2 cut(s)	33, 561
HaeIII	GGCC	2 cut(s)	756, 785
HapII	CCGG	1 cut(s)	302
Hin1II	CATG	6 cut(s)	47, 274, 602, 643, 706, 799
HinfI	GANTC	5 cut(s)	127, 379, 432, 643, 698
HpaII	CCGG	1 cut(s)	302
HphI	GGTGA	1 cut(s)	547
Hpy166II	GTNNAC	2 cut(s)	318, 404
Hpy188I	TCNGA	1 cut(s)	327
Hpy188III	TCNNGA	3 cut(s)	137, 391, 796
Hpy8I	GTNNAC	2 cut(s)	318, 404
HpyAV	CCTTC	2 cut(s)	807, 840
HpyCH4III	ACNGT	2 cut(s)	94, 840
HpyCH4IV	ACGT	3 cut(s)	201, 314, 800
HpyCH4V	TGCA	5 cut(s)	70, 416, 493, 706, 853
HpyF10VI	GCNNNNNNNGC	2 cut(s)	155, 467
HpyF3I	CTNAG	1 cut(s)	39
HpySE526I	ACGT	3 cut(s)	201, 314, 800
Hsp92II	CATG	6 cut(s)	47, 274, 602, 643, 706, 799
Ksp22I	TGATCA	2 cut(s)	267, 537
Kzo9I	GATC	3 cut(s)	267, 537, 673
LpnPI	CCDG	9 cut(s)	15, 315, 404, 525, 539, 543, 566, 662, 770
LweI	GCATC	1 cut(s)	480
MaeI	CTAG	1 cut(s)	87
MaeII	ACGT	3 cut(s)	201, 314, 800
MaeIII	GTNAC	2 cut(s)	167, 520
MalI	GATC	3 cut(s)	269, 539, 675
MboI	GATC	3 cut(s)	267, 537, 673
MboII	GAAGA	2 cut(s)	406, 496
MfeI	CAATTG	1 cut(s)	150
MluCI	AATT	6 cut(s)	150, 182, 437, 529, 627, 712
MlyI	GAGTC	1 cut(s)	121
MmeI	TCCRAC	1 cut(s)	177
MnlI	CCTC	3 cut(s)	148, 390, 831
Mph1103I	ATGCAT	1 cut(s)	72
MseI	TTAA	7 cut(s)	96, 117, 143, 213, 447, 528, 624
MslI	CAYNNNNRTG	1 cut(s)	75
MspCI	CTTAAG	1 cut(s)	116
MspI	CCGG	1 cut(s)	302
MspR9I	CCNGG	1 cut(s)	554
MunI	CAATTG	1 cut(s)	150
MvaI	CCWGG	1 cut(s)	554
MwoI	GCNNNNNNNGC	2 cut(s)	155, 467
NdeI	CATATG	1 cut(s)	262
NdeII	GATC	3 cut(s)	267, 537, 673
NlaIII	CATG	6 cut(s)	47, 274, 602, 643, 706, 799
NlaIV	GGNNCC	1 cut(s)	819
NmuCI	GTSAC	1 cut(s)	167
NsiI	ATGCAT	1 cut(s)	72
NspI	RCATGY	1 cut(s)	47
NspV	TTCGAA	1 cut(s)	430
PaeI	GCATGC	1 cut(s)	47
PagI	TCATGA	1 cut(s)	795
PceI	AGGCCT	1 cut(s)	756
PfeI	GAWTC	4 cut(s)	379, 432, 643, 698
PflMI	CCANNNNNTGG	1 cut(s)	442
PleI	GAGTC	1 cut(s)	121
PpsI	GAGTC	1 cut(s)	121
Ppu21I	YACGTR	1 cut(s)	315
PsiI	TTATAA	2 cut(s)	11, 342
Psp6I	CCWGG	1 cut(s)	552
PspFI	CCCAGC	2 cut(s)	29, 557
PspGI	CCWGG	1 cut(s)	552
PspN4I	GGNNCC	1 cut(s)	819
PspPI	GGNCC	1 cut(s)	388
RseI	CAYNNNNRTG	1 cut(s)	75
SaqAI	TTAA	7 cut(s)	96, 117, 143, 213, 447, 528, 624
Sau3AI	GATC	3 cut(s)	267, 537, 673
Sau96I	GGNCC	1 cut(s)	388
SchI	GAGTC	1 cut(s)	121
ScrFI	CCNGG	1 cut(s)	554
SfaNI	GCATC	1 cut(s)	480
SfuI	TTCGAA	1 cut(s)	430
SinI	GGWCC	1 cut(s)	388
SmiMI	CAYNNNNRTG	1 cut(s)	75
SmlI	CTYRAG	1 cut(s)	116
SmoI	CTYRAG	1 cut(s)	116
SnaBI	TACGTA	1 cut(s)	315
SphI	GCATGC	1 cut(s)	47
Sse9I	AATT	6 cut(s)	150, 182, 437, 529, 627, 712
SseBI	AGGCCT	1 cut(s)	756
SsiI	CCGC	2 cut(s)	352, 760
SspI	AATATT	1 cut(s)	217
SspMI	CTAG	1 cut(s)	87
StuI	AGGCCT	1 cut(s)	756
StyD4I	CCNGG	1 cut(s)	552
StyI	CCWWGG	1 cut(s)	786
TaaI	ACNGT	2 cut(s)	94, 840
TaiI	ACGT	3 cut(s)	204, 317, 803
TaqI	TCGA	1 cut(s)	430
TasI	AATT	6 cut(s)	150, 182, 437, 529, 627, 712
TfiI	GAWTC	4 cut(s)	379, 432, 643, 698
Tru1I	TTAA	7 cut(s)	96, 117, 143, 213, 447, 528, 624
Tru9I	TTAA	7 cut(s)	96, 117, 143, 213, 447, 528, 624
TseFI	GTSAC	1 cut(s)	167
Tsp45I	GTSAC	1 cut(s)	167
TspDTI	ATGAA	4 cut(s)	531, 635, 728, 779
Van91I	CCANNNNNTGG	1 cut(s)	442
Vha464I	CTTAAG	1 cut(s)	116
VpaK11BI	GGWCC	1 cut(s)	388
XapI	RAATTY	1 cut(s)	627
XceI	RCATGY	1 cut(s)	47
XmiI	GTMKAC	1 cut(s)	317
XspI	CTAG	1 cut(s)	87
Zsp2I	ATGCAT	1 cut(s)	72

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