Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0010070

Physical Location & Seq

Genomic Coordinates Reverse (-)

31239197 .. 31242774

Gene Structure 3578 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG179800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGATACAAGCTTGCAGGTATCGGAGTGGATGGTCGCCCATAATGAGTTTGAGTTATTAGATTCAGACTATGCAGTCCGCATTGTCTTGATGACAAAAGTCTTTGGTATTGATGCTGCAGAACGGTACTTTGAAGGTCTACCTCCTACTGCAAAAACTAGTGAGACATATACTGCTCTCCTCCACTGCTATGCTGCAGCAAAATTGACTGAAAAGGCTGAGGACCTCTATGAGGGAATAAAGAATTCGAAGCTGTCCCTTAGTGCCCTTACTTACAATGAGATGATGACTATGTACATGTCAGTGGGACAAGTGGAGAAGGTCCCTTTAGTTGTTGAAGAACTAAAACGGCAGAAGGTTGCCCCAGATATCTTCACTTACAATCTTTGGATAAGTTCATGTGCTGCAATGCTAAAGATAGATCAAGTTAAATGGATATTAGATGAAATGAGAGCTGATCCTGGTTTTGCTGAAGGCTGGGAAACATACATTAACCTGGCCAATCTATATATCAATATTGGTCATCTGGTGAATGTAGAATTCAACTCTCTGGTTGAAACTGAGAACGGAATCACACAAAGCGAATGGATTACGTACGACTTCCTCATTATTCTGCATGCTGGTTTAGGAAACAAAGGTAGAATCGATCAGATATGGAAATCCTTGTTAATGACAAAACAAAAGATGACAAGTAGAAATTATATTTGCATCATTTCCTCATATATAATGCTTGGGCAGCTGAAAGAAGTGGGAGAAGTTGTTGATCAGTGGAAGCTTTCAACCACTGCAGATTTTGTTGTTTCTGCCTGTAGGATGGTTTGGAATGCATTCAGAGACATCGGGTTGACTGAAAAAGCCCACGACTTCCAAACACTTCTGATTCAGAAGAACTGCGATTCTTCAATTTCGTTAGAGTAG

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

305

Amino Acids

34.76

Weight (kDa)

4.92

Isoelectric Point (pI)

31.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	80 - 134	6.7e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	90 - 135	1.7e-08	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010070)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09450
fragaria_vesca	FvH4_2g11810 FvH4_2g11810
malus_domestica	MD05G1046600.v1.1 MD10G1053300.v1.1
prunus_persica	Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1 Prupe.8G066700_v2.0.a1
pyrus_communis	pycom05g03840 pycom10g04040
rosa_chinensis	RchiOBHm_Chr6g0271371
rosa_laevigata	RLG00000013730
rosa_multiflora	Rmu_sc0004866.1_g000034
rosa_roxburghii	Rroxscaffold_7G00197060
rosa_rugosa	Rorug06G0060700 Rorug06G0060700
rosa_samantha	Rh6AG179800 Rh6BG183100 Rh6CG179700 Rh6DG171400
rosa_wichuraiana	Rw6G015450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	74
Acc36I	ACCTGC	1 cut(s)	7
AccI	GTMKAC	1 cut(s)	139
AciI	CCGC	1 cut(s)	79
AclWI	GGATC	1 cut(s)	452
AcoI	YGGCCR	1 cut(s)	498
AcsI	RAATTY	2 cut(s)	244, 539
AcuI	CTGAAG	1 cut(s)	492
AfaI	GTAC	3 cut(s)	128, 296, 596
AfiI	CCNNNNNNNGG	1 cut(s)	232
AflIII	ACRYGT	1 cut(s)	297
AgsI	TTSAA	6 cut(s)	134, 338, 544, 557, 780, 903
AhlI	ACTAGT	1 cut(s)	158
AjnI	CCWGG	2 cut(s)	460, 495
AluBI	AGCT	5 cut(s)	12, 253, 455, 739, 775
AluI	AGCT	5 cut(s)	12, 253, 455, 739, 775
Alw26I	GTCTC	2 cut(s)	158, 828
AlwI	GGATC	1 cut(s)	452
AoxI	GGCC	1 cut(s)	498
ApeKI	GCWGC	5 cut(s)	116, 194, 197, 404, 736
ApoI	RAATTY	2 cut(s)	244, 539
Asp700I	GAANNNNTTC	1 cut(s)	827
AspS9I	GGNCC	2 cut(s)	223, 322
AsuHPI	GGTGA	1 cut(s)	541
AsuII	TTCGAA	1 cut(s)	248
AvaII	GGWCC	2 cut(s)	223, 322
BaeGI	GKGCMC	1 cut(s)	268
BalI	TGGCCA	1 cut(s)	500
BbvCI	CCTCAGC	1 cut(s)	219
BbvI	GCAGC	5 cut(s)	103, 181, 209, 391, 748
BccI	CCATC	2 cut(s)	25, 808
BceAI	ACGGC	1 cut(s)	365
BciT130I	CCWGG	2 cut(s)	462, 497
BclI	TGATCA	1 cut(s)	763
BcoDI	GTCTC	2 cut(s)	158, 828
BcuI	ACTAGT	1 cut(s)	158
BfaI	CTAG	1 cut(s)	159
BfmI	CTRYAG	4 cut(s)	117, 195, 786, 808
BfuAI	ACCTGC	1 cut(s)	7
BisI	GCNGC	5 cut(s)	117, 195, 198, 405, 737
BlsI	GCNGC	5 cut(s)	118, 196, 199, 406, 738
Bme1390I	CCNGG	2 cut(s)	462, 497
Bme18I	GGWCC	2 cut(s)	223, 322
BmgT120I	GGNCC	2 cut(s)	223, 322
BmiI	GGNNCC	1 cut(s)	324
BmrFI	CCNGG	2 cut(s)	462, 497
BmsI	GCATC	2 cut(s)	103, 717
BoxI	GACNNNNGTC	1 cut(s)	98
Bpu10I	CCTNAGC	1 cut(s)	219
Bpu14I	TTCGAA	1 cut(s)	248
Bsa29I	ATCGAT	1 cut(s)	645
BsaAI	YACGTR	1 cut(s)	594
BsaXI	ACNNNNNCTCC	2 cut(s)	744, 774
Bsc4I	CCNNNNNNNGG	1 cut(s)	232
Bse3DI	GCAATG	1 cut(s)	414
BseBI	CCWGG	2 cut(s)	462, 497
BseCI	ATCGAT	1 cut(s)	645
BseGI	GGATG	2 cut(s)	36, 819
BseLI	CCNNNNNNNGG	1 cut(s)	232
BseMI	GCAATG	1 cut(s)	414
BseMII	CTCAG	2 cut(s)	210, 552
BseRI	GAGGAG	1 cut(s)	170
BseSI	GKGCMC	1 cut(s)	268
BseXI	GCAGC	5 cut(s)	103, 181, 209, 391, 748
BseYI	CCCAGC	1 cut(s)	477
BshFI	GGCC	1 cut(s)	500
BshVI	ATCGAT	1 cut(s)	645
BsiWI	CGTACG	1 cut(s)	594
BslFI	GGGAC	3 cut(s)	241, 308, 321
BslI	CCNNNNNNNGG	1 cut(s)	232
BsmAI	GTCTC	2 cut(s)	158, 828
BsmFI	GGGAC	3 cut(s)	241, 308, 321
BsmI	GAATGC	2 cut(s)	827, 829
BsnI	GGCC	1 cut(s)	500
Bsp119I	TTCGAA	1 cut(s)	248
Bsp1286I	GDGCHC	1 cut(s)	268
Bsp1407I	TGTACA	1 cut(s)	294
Bsp143I	GATC	4 cut(s)	421, 457, 646, 763
BspACI	CCGC	1 cut(s)	79
BspANI	GGCC	1 cut(s)	500
BspCNI	CTCAG	2 cut(s)	211, 553
BspDI	ATCGAT	1 cut(s)	645
BspLI	GGNNCC	1 cut(s)	324
BspMAI	CTGCAG	3 cut(s)	121, 199, 790
BspMI	ACCTGC	1 cut(s)	7
BspPI	GGATC	1 cut(s)	452
BspT104I	TTCGAA	1 cut(s)	248
BsrDI	GCAATG	1 cut(s)	414
BsrGI	TGTACA	1 cut(s)	294
BssMI	GATC	4 cut(s)	421, 457, 646, 763
Bst2UI	CCWGG	2 cut(s)	462, 497
Bst4CI	ACNGT	1 cut(s)	126
BstAUI	TGTACA	1 cut(s)	294
BstBAI	YACGTR	1 cut(s)	594
BstBI	TTCGAA	1 cut(s)	248
BstC8I	GCNNGC	2 cut(s)	14, 618
BstDEI	CTNAG	3 cut(s)	219, 260, 561
BstENI	CCTNNNNNAGG	1 cut(s)	230
BstF5I	GGATG	2 cut(s)	36, 819
BstKTI	GATC	4 cut(s)	424, 460, 649, 766
BstMAI	GTCTC	2 cut(s)	158, 828
BstMBI	GATC	4 cut(s)	421, 457, 646, 763
BstMWI	GCNNNNNNNGC	1 cut(s)	736
BstNI	CCWGG	2 cut(s)	462, 497
BstNSI	RCATGY	2 cut(s)	301, 620
BstPAI	GACNNNNGTC	1 cut(s)	98
BstSCI	CCNGG	2 cut(s)	460, 495
BstSFI	CTRYAG	4 cut(s)	117, 195, 786, 808
BstSLI	GKGCMC	1 cut(s)	268
BstSNI	TACGTA	1 cut(s)	594
BstV1I	GCAGC	5 cut(s)	103, 181, 209, 391, 748
Bsu15I	ATCGAT	1 cut(s)	645
BsuRI	GGCC	1 cut(s)	500
BsuTUI	ATCGAT	1 cut(s)	645
BtsCI	GGATG	2 cut(s)	36, 819
BtsI	GCAGTG	2 cut(s)	184, 783
BtsIMutI	CAGTG	4 cut(s)	184, 309, 773, 783
BveI	ACCTGC	1 cut(s)	7
Cac8I	GCNNGC	2 cut(s)	14, 618
Cfr13I	GGNCC	2 cut(s)	223, 322
ClaI	ATCGAT	1 cut(s)	645
Csp6I	GTAC	3 cut(s)	127, 295, 595
CviAII	CATG	3 cut(s)	298, 399, 617
CviJI	RGCY	9 cut(s)	12, 218, 253, 455, 477, 500, 739, 775, 857
CviKI_1	RGCY	9 cut(s)	12, 218, 253, 455, 477, 500, 739, 775, 857
CviQI	GTAC	3 cut(s)	127, 295, 595
DdeI	CTNAG	3 cut(s)	219, 260, 561
DpnI	GATC	4 cut(s)	423, 459, 648, 765
DpnII	GATC	4 cut(s)	421, 457, 646, 763
DrdI	GACNNNNNNGTC	1 cut(s)	74
DseDI	GACNNNNNNGTC	1 cut(s)	74
EaeI	YGGCCR	1 cut(s)	498
Eco105I	TACGTA	1 cut(s)	594
Eco32I	GATATC	1 cut(s)	370
Eco47I	GGWCC	2 cut(s)	223, 322
Eco57I	CTGAAG	1 cut(s)	492
EcoNI	CCTNNNNNAGG	1 cut(s)	230
EcoO109I	RGGNCCY	2 cut(s)	223, 322
EcoRI	GAATTC	2 cut(s)	244, 539
EcoRII	CCWGG	2 cut(s)	460, 495
EcoRV	GATATC	1 cut(s)	370
EcoT22I	ATGCAT	1 cut(s)	829
FaeI	CATG	3 cut(s)	301, 402, 620
FaqI	GGGAC	3 cut(s)	241, 308, 321
FatI	CATG	3 cut(s)	297, 398, 616
FbaI	TGATCA	1 cut(s)	763
FblI	GTMKAC	1 cut(s)	139
Fnu4HI	GCNGC	5 cut(s)	117, 195, 198, 405, 737
FokI	GGATG	2 cut(s)	43, 826
Fsp4HI	GCNGC	5 cut(s)	117, 195, 198, 405, 737
FspBI	CTAG	1 cut(s)	159
GluI	GCNGC	5 cut(s)	117, 195, 198, 405, 737
GsaI	CCCAGC	1 cut(s)	481
HaeIII	GGCC	1 cut(s)	500
Hin1II	CATG	3 cut(s)	301, 402, 620
HincII	GTYRAC	1 cut(s)	846
HindII	GTYRAC	1 cut(s)	846
HindIII	AAGCTT	2 cut(s)	10, 773
HinfI	GANTC	5 cut(s)	62, 570, 642, 880, 896
HphI	GGTGA	1 cut(s)	541
Hpy166II	GTNNAC	2 cut(s)	140, 846
Hpy188I	TCNGA	6 cut(s)	25, 67, 651, 833, 879, 885
Hpy188III	TCNNGA	1 cut(s)	88
Hpy8I	GTNNAC	2 cut(s)	140, 846
HpyAV	CCTTC	4 cut(s)	128, 313, 349, 467
HpyCH4III	ACNGT	1 cut(s)	126
HpyCH4IV	ACGT	1 cut(s)	593
HpyF10VI	GCNNNNNNNGC	1 cut(s)	736
HpyF3I	CTNAG	3 cut(s)	219, 260, 561
HpySE526I	ACGT	1 cut(s)	593
Hsp92II	CATG	3 cut(s)	301, 402, 620
Ksp22I	TGATCA	1 cut(s)	763
Kzo9I	GATC	4 cut(s)	421, 457, 646, 763
Lsp1109I	GCAGC	5 cut(s)	103, 181, 209, 391, 748
LweI	GCATC	2 cut(s)	103, 717
MaeI	CTAG	1 cut(s)	159
MaeII	ACGT	1 cut(s)	593
MalI	GATC	4 cut(s)	423, 459, 648, 765
MboI	GATC	4 cut(s)	421, 457, 646, 763
MboII	GAAGA	4 cut(s)	350, 364, 891, 898
MhlI	GDGCHC	1 cut(s)	268
MlsI	TGGCCA	1 cut(s)	500
MluCI	AATT	5 cut(s)	203, 244, 539, 697, 903
MluNI	TGGCCA	1 cut(s)	500
MnlI	CCTC	7 cut(s)	153, 191, 214, 226, 236, 614, 727
Mox20I	TGGCCA	1 cut(s)	500
Mph1103I	ATGCAT	1 cut(s)	829
MroXI	GAANNNNTTC	1 cut(s)	827
MscI	TGGCCA	1 cut(s)	500
MseI	TTAA	3 cut(s)	429, 492, 668
MslI	CAYNNNNRTG	2 cut(s)	189, 302
Msp20I	TGGCCA	1 cut(s)	500
MspA1I	CMGCKG	1 cut(s)	739
MspR9I	CCNGG	2 cut(s)	462, 497
Mva1269I	GAATGC	2 cut(s)	827, 829
MvaI	CCWGG	2 cut(s)	462, 497
MwoI	GCNNNNNNNGC	1 cut(s)	736
NdeII	GATC	4 cut(s)	421, 457, 646, 763
NlaIII	CATG	3 cut(s)	301, 402, 620
NlaIV	GGNNCC	1 cut(s)	324
NsiI	ATGCAT	1 cut(s)	829
NspI	RCATGY	2 cut(s)	301, 620
NspV	TTCGAA	1 cut(s)	248
PaeI	GCATGC	1 cut(s)	620
PciI	ACATGT	1 cut(s)	297
PctI	GAATGC	2 cut(s)	827, 829
PdmI	GAANNNNTTC	1 cut(s)	827
PfeI	GAWTC	5 cut(s)	62, 570, 642, 880, 896
Pfl23II	CGTACG	1 cut(s)	594
PkrI	GCNGC	5 cut(s)	118, 196, 199, 406, 738
Ppu21I	YACGTR	1 cut(s)	594
PpuMI	RGGWCCY	2 cut(s)	223, 322
PscI	ACATGT	1 cut(s)	297
PshAI	GACNNNNGTC	1 cut(s)	98
Psp5II	RGGWCCY	2 cut(s)	223, 322
Psp6I	CCWGG	2 cut(s)	460, 495
PspFI	CCCAGC	1 cut(s)	477
PspGI	CCWGG	2 cut(s)	460, 495
PspLI	CGTACG	1 cut(s)	594
PspN4I	GGNNCC	1 cut(s)	324
PspPI	GGNCC	2 cut(s)	223, 322
PspPPI	RGGWCCY	2 cut(s)	223, 322
PstI	CTGCAG	3 cut(s)	121, 199, 790
PvuII	CAGCTG	1 cut(s)	739
RsaI	GTAC	3 cut(s)	128, 296, 596
RsaNI	GTAC	3 cut(s)	127, 295, 595
RseI	CAYNNNNRTG	2 cut(s)	189, 302
SaqAI	TTAA	3 cut(s)	429, 492, 668
SatI	GCNGC	5 cut(s)	117, 195, 198, 405, 737
Sau3AI	GATC	4 cut(s)	421, 457, 646, 763
Sau96I	GGNCC	2 cut(s)	223, 322
ScrFI	CCNGG	2 cut(s)	462, 497
SduI	GDGCHC	1 cut(s)	268
SfaNI	GCATC	2 cut(s)	103, 717
SfcI	CTRYAG	4 cut(s)	117, 195, 786, 808
SfuI	TTCGAA	1 cut(s)	248
SinI	GGWCC	2 cut(s)	223, 322
SmiMI	CAYNNNNRTG	2 cut(s)	189, 302
SnaBI	TACGTA	1 cut(s)	594
SpeI	ACTAGT	1 cut(s)	158
SphI	GCATGC	1 cut(s)	620
Sse9I	AATT	5 cut(s)	203, 244, 539, 697, 903
SsiI	CCGC	1 cut(s)	79
SspI	AATATT	1 cut(s)	517
SspMI	CTAG	1 cut(s)	159
StyD4I	CCNGG	2 cut(s)	460, 495
TaaI	ACNGT	1 cut(s)	126
TaiI	ACGT	1 cut(s)	596
TaqI	TCGA	2 cut(s)	248, 645
TasI	AATT	5 cut(s)	203, 244, 539, 697, 903
TatI	WGTACW	1 cut(s)	294
TfiI	GAWTC	5 cut(s)	62, 570, 642, 880, 896
Tru1I	TTAA	3 cut(s)	429, 492, 668
Tru9I	TTAA	3 cut(s)	429, 492, 668
TscAI	CASTG	4 cut(s)	191, 309, 773, 790
TseI	GCWGC	5 cut(s)	116, 194, 197, 404, 736
TspDTI	ATGAA	2 cut(s)	387, 459
TspGWI	ACGGA	1 cut(s)	582
TspRI	CASTG	4 cut(s)	191, 309, 773, 790
VpaK11BI	GGWCC	2 cut(s)	223, 322
XagI	CCTNNNNNAGG	1 cut(s)	230
XapI	RAATTY	2 cut(s)	244, 539
XceI	RCATGY	2 cut(s)	301, 620
XmiI	GTMKAC	1 cut(s)	139
XmnI	GAANNNNTTC	1 cut(s)	827
XspI	CTAG	1 cut(s)	159
Zsp2I	ATGCAT	1 cut(s)	829

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