Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000378

Physical Location & Seq

Genomic Coordinates Forward (+)

40286399 .. 40287406

Gene Structure 1008 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG213200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1008 bp

ATGAGCGATGAATTGAAGCTCAGTCTGACTCCCGGAGACGTTGCTGCCCGGATAGACTTGATCTCGAGAGTTCACGGCGCCGAAGAAGCCGAGAAGTATTTTGATGGCGTTTCGGAGCAATTGAAAGGTTTGCAAGCTTATTGTGCTCTCTTACATTGCTATGCTCAGCATAGATTGTTGGATAAGGCTGAGAGTGTTTTTGGAAAAATGAAGGAGTTAGGTTTTGAGATAGGAATTAGGTCTTATAATTCAATGTTATGGCTATGTTTTCGGACTGGTAATCATGGAAGGATAGATGTTTTAGTGAAAGAGATGGAAGAAAAAGGCATTGATTATAACCAAGGCACTTTGATGGTTAGGTTGTATTCGTATGCTGCCATTTCGGAGATAGGCCGAATGGAGGAGGTTTTGCTGAAGATGGAAGCCCATCCTCTGGTCACTATAAGCTGGCGTAGCTATGTTATTGCAGCCAATGCGTTGTCCAAGGTTGGAGAAGTGGACAAGGCATTGACATTGCTGAGGAGCTCGGAGAAACTCATTAGCAATAGCACAAGGAAAATTGCTTATGAACACCTGCTCTCTTCATACACTGCTATTGGTAAGAGAGACGAGGTTGATAGAATCTCGAATTTGTATAAAAATTTGGGAAAGTCCTATAGTTATCGTCATATGTTAGTTGCATTGCTGAAAATGGATGACATTGATGGTGCTGAGAAGCTTGTGGAGGAATGTGAATCTGAGTCCAAGAAGTTTGACATTCAGATAGGCAACTTGATGGTCAACGCTTACTGCAAGAAAGGTTATTTGGAGAGGGCTAAATCCTTTGTAGAGAAGCTTGCAGAGAGTGGAAAGGAGAATGTAAGCACATGGTGTCTTTTGAGTAAGGGATATTATAGGAATGGGTGTGTGGCGGAGGCATTGCAAGCAATTAAAAAGGCAGCAACTTGCCATGTCAACCAGGATGGAGGTTCAATCATTCAACTTTGGCTGCATGTCTTGTGTACTTGA

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

Protein Analysis

335

Amino Acids

37.71

Weight (kDa)

7.09

Isoelectric Point (pI)

29.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	46 - 75	1.2e-06	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: OG0000378)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G20710 AT2G20710 AT2G20720
fragaria_vesca	FvH4_6g21294 FvH4_6g21300 FvH4_6g21300 FvH4_6g21300
malus_domestica	MD02G1294300.v1.1 MD05G1022100.v1.1 MD05G1022200.v1.1 MD05G1046500.v1.1 MD09G1248800.v1.1 MD12G1049300.v1.1 MD17G1241400.v1.1
prunus_persica	Prupe.3G136900_v2.0.a1 Prupe.3G136900_v2.0.a1 Prupe.3G136900_v2.0.a1 Prupe.3G136900_v2.0.a1 Prupe.3G136900_v2.0.a1 Prupe.7G086900_v2.0.a1 Prupe.8G026200_v2.0.a1 Prupe.8G026200_v2.0.a1 Prupe.8G026200_v2.0.a1 Prupe.8G026200_v2.0.a1 Prupe.8G026200_v2.0.a1
pyrus_communis	pycom02g24780 pycom05g01290 pycom05g01300 pycom09g16570 pycom12g04420 pycom14g03980 pycom17g24460
rosa_chinensis	RchiOBHm_Chr3g0477821 RchiOBHm_Chr3g0477851 RchiOBHm_Chr3g0477861 RchiOBHm_Chr3g0477891 RchiOBHm_Chr6g0275941 RchiOBHm_Chr6g0276181
rosa_laevigata	RLG00000013421 RLG00000013422 RLG00000023681 RLG00000023684 RLG00000023685 RLG00000023686 RLG00000023687 RLG00000023689
rosa_multiflora	Rmu_co8131942.1_g000001 Rmu_co8189010.1_g000001 Rmu_co8432533.1_g000001 Rmu_sc0002030.1_g000001 Rmu_sc0002030.1_g000002 Rmu_sc0005991.1_g000015 Rmu_sc0005991.1_g000019 Rmu_sc0005991.1_g000020 Rmu_sc0005991.1_g000021 Rmu_sc0017665.1_g000003 Rmu_sc0017665.1_g000006 Rmu_sc0017665.1_g000007 Rmu_sc0017867.1_g000002 Rmu_sc0017867.1_g000003 Rmu_sc0022989.1_g000003 Rmu_sc0022990.1_g000001 Rmu_ssc0000201.1_g000012 Rmu_ssc0000201.1_g000013 Rmu_ssc0000201.1_g000014
rosa_roxburghii	Rroxscaffold_6G00403620 Rroxscaffold_6G00403640 Rroxscaffold_6G00403650 Rroxscaffold_6G00403660 Rroxscaffold_6G00403690 Rroxscaffold_7G00192760
rosa_rugosa	Rorug03G0163500 Rorug03G0163600 Rorug03G0163800 Rorug06G0097700
rosa_samantha	Rh3AG213800 Rh3AG214000 Rh3AG214100 Rh3AG214200 Rh3AG214400 Rh3BG247600 Rh3BG247700 Rh3BG248000 Rh3CG241100 Rh3CG241500 Rh3CG241700 Rh3CG242000 Rh3DG240500 Rh3DG240900 Rh3DG241000 Rh3DG241100 Rh3DG241300 Rh6AG209100 Rh6AG210500 Rh6BG213200 Rh6BG214700 Rh6CG216100 Rh6CG217400 Rh6CG217500 Rh6DG205500 Rh6DG207000
rosa_wichuraiana	Rw3G019320 Rw6G018230 Rw6G018340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	246, 336
AarI	CACCTGC	1 cut(s)	582
Acc36I	ACCTGC	1 cut(s)	582
AccB1I	GGYRCC	1 cut(s)	77
AccB7I	CCANNNNNTGG	1 cut(s)	433
AciI	CCGC	1 cut(s)	911
AcsI	RAATTY	2 cut(s)	628, 640
AcuI	CTGAAG	1 cut(s)	434
AcyI	GRCGYC	1 cut(s)	78
AdeI	CACNNNGTG	1 cut(s)	870
AfaI	GTAC	1 cut(s)	1003
AfiI	CCNNNNNNNGG	2 cut(s)	400, 433
AgsI	TTSAA	5 cut(s)	16, 124, 252, 972, 980
AjnI	CCWGG	1 cut(s)	957
AjuI	GAANNNNNNNTTGG	2 cut(s)	788, 820
AluBI	AGCT	7 cut(s)	19, 137, 447, 456, 525, 718, 835
AluI	AGCT	7 cut(s)	19, 137, 447, 456, 525, 718, 835
Alw21I	GWGCWC	2 cut(s)	148, 527
Alw26I	GTCTC	2 cut(s)	30, 600
Ama87I	CYCGRG	1 cut(s)	64
AoxI	GGCC	1 cut(s)	391
ApeKI	GCWGC	5 cut(s)	44, 374, 467, 938, 988
ApoI	RAATTY	2 cut(s)	628, 640
AspLEI	GCGC	1 cut(s)	80
AsuC2I	CCSGG	2 cut(s)	33, 49
AvaI	CYCGRG	1 cut(s)	64
BanI	GGYRCC	1 cut(s)	77
BanII	GRGCYC	1 cut(s)	527
Bbv12I	GWGCWC	2 cut(s)	148, 527
BbvCI	CCTCAGC	1 cut(s)	518
BbvI	GCAGC	5 cut(s)	31, 361, 479, 950, 975
BccI	CCATC	8 cut(s)	98, 307, 346, 412, 435, 698, 769, 956
BceAI	ACGGC	1 cut(s)	91
BciT130I	CCWGG	1 cut(s)	959
BcnI	CCSGG	2 cut(s)	33, 49
BcoDI	GTCTC	2 cut(s)	30, 600
BfmI	CTRYAG	1 cut(s)	655
BfoI	RGCGCY	1 cut(s)	81
BfuAI	ACCTGC	1 cut(s)	582
BisI	GCNGC	5 cut(s)	45, 375, 468, 939, 989
BlpI	GCTNAGC	1 cut(s)	165
BlsI	GCNGC	5 cut(s)	46, 376, 469, 940, 990
Bme1390I	CCNGG	3 cut(s)	33, 49, 959
BmeT110I	CYCGRG	1 cut(s)	64
BmiI	GGNNCC	1 cut(s)	79
BmrFI	CCNGG	3 cut(s)	33, 49, 959
Bpu10I	CCTNAGC	1 cut(s)	518
Bpu1102I	GCTNAGC	1 cut(s)	165
BpuMI	CCSGG	2 cut(s)	33, 49
BsaHI	GRCGYC	1 cut(s)	78
BsaJI	CCNNGG	2 cut(s)	340, 483
Bsc4I	CCNNNNNNNGG	2 cut(s)	400, 433
Bse1I	ACTGG	1 cut(s)	280
Bse3DI	GCAATG	4 cut(s)	154, 512, 680, 917
BseBI	CCWGG	1 cut(s)	959
BseDI	CCNNGG	2 cut(s)	340, 483
BseGI	GGATG	3 cut(s)	427, 700, 967
BseLI	CCNNNNNNNGG	2 cut(s)	400, 433
BseMI	GCAATG	4 cut(s)	154, 512, 680, 917
BseMII	CTCAG	6 cut(s)	34, 179, 180, 509, 702, 729
BseNI	ACTGG	1 cut(s)	280
BseRI	GAGGAG	2 cut(s)	416, 535
BseXI	GCAGC	5 cut(s)	31, 361, 479, 950, 975
BshFI	GGCC	1 cut(s)	393
BshNI	GGYRCC	1 cut(s)	77
BsiHKAI	GWGCWC	2 cut(s)	148, 527
BsiHKCI	CYCGRG	1 cut(s)	64
BsiSI	CCGG	2 cut(s)	33, 49
BslI	CCNNNNNNNGG	2 cut(s)	400, 433
BsmAI	GTCTC	2 cut(s)	30, 600
BsmBI	CGTCTC	2 cut(s)	30, 600
BsnI	GGCC	1 cut(s)	393
BsoBI	CYCGRG	1 cut(s)	64
Bsp1286I	GDGCHC	2 cut(s)	148, 527
Bsp143I	GATC	1 cut(s)	60
Bsp1720I	GCTNAGC	1 cut(s)	165
BspACI	CCGC	1 cut(s)	911
BspANI	GGCC	1 cut(s)	393
BspCNI	CTCAG	6 cut(s)	33, 178, 181, 510, 703, 730
BspLI	GGNNCC	1 cut(s)	79
BspMI	ACCTGC	1 cut(s)	582
BspT107I	GGYRCC	1 cut(s)	77
BsrDI	GCAATG	4 cut(s)	154, 512, 680, 917
BsrI	ACTGG	1 cut(s)	280
BssECI	CCNNGG	2 cut(s)	340, 483
BssMI	GATC	1 cut(s)	60
BssNI	GRCGYC	1 cut(s)	78
BssT1I	CCWWGG	2 cut(s)	340, 483
Bst2UI	CCWGG	1 cut(s)	959
Bst6I	CTCTTC	1 cut(s)	586
BstACI	GRCGYC	1 cut(s)	78
BstAPI	GCANNNNNTGC	1 cut(s)	473
BstC8I	GCNNGC	4 cut(s)	135, 449, 837, 924
BstDEI	CTNAG	6 cut(s)	20, 165, 189, 518, 711, 738
BstF5I	GGATG	3 cut(s)	427, 700, 967
BstH2I	RGCGCY	1 cut(s)	81
BstHHI	GCGC	1 cut(s)	80
BstKTI	GATC	1 cut(s)	63
BstMAI	GTCTC	2 cut(s)	30, 600
BstMBI	GATC	1 cut(s)	60
BstMWI	GCNNNNNNNGC	5 cut(s)	86, 143, 453, 473, 923
BstNI	CCWGG	1 cut(s)	959
BstNSI	RCATGY	1 cut(s)	995
BstSCI	CCNGG	3 cut(s)	31, 47, 957
BstSFI	CTRYAG	1 cut(s)	655
BstV1I	GCAGC	5 cut(s)	31, 361, 479, 950, 975
BsuRI	GGCC	1 cut(s)	393
BtgZI	GCGATG	1 cut(s)	21
BtsCI	GGATG	3 cut(s)	427, 700, 967
BtsI	GCAGTG	1 cut(s)	588
BtsIMutI	CAGTG	1 cut(s)	588
BveI	ACCTGC	1 cut(s)	582
Cac8I	GCNNGC	4 cut(s)	135, 449, 837, 924
CfoI	GCGC	1 cut(s)	80
Csp6I	GTAC	1 cut(s)	1002
CviAII	CATG	4 cut(s)	284, 867, 950, 992
CviQI	GTAC	1 cut(s)	1002
DdeI	CTNAG	6 cut(s)	20, 165, 189, 518, 711, 738
DinI	GGCGCC	1 cut(s)	79
DpnI	GATC	1 cut(s)	62
DpnII	GATC	1 cut(s)	60
DraIII	CACNNNGTG	1 cut(s)	870
Eam1104I	CTCTTC	1 cut(s)	586
EarI	CTCTTC	1 cut(s)	586
EciI	GGCGGA	1 cut(s)	926
Ecl136II	GAGCTC	1 cut(s)	525
Eco130I	CCWWGG	2 cut(s)	340, 483
Eco24I	GRGCYC	1 cut(s)	527
Eco53kI	GAGCTC	1 cut(s)	525
Eco57I	CTGAAG	1 cut(s)	434
Eco88I	CYCGRG	1 cut(s)	64
EcoICRI	GAGCTC	1 cut(s)	525
EcoRII	CCWGG	1 cut(s)	957
EcoT14I	CCWWGG	2 cut(s)	340, 483
EcoT38I	GRGCYC	1 cut(s)	527
EgeI	GGCGCC	1 cut(s)	79
EheI	GGCGCC	1 cut(s)	79
ErhI	CCWWGG	2 cut(s)	340, 483
Esp3I	CGTCTC	2 cut(s)	30, 600
FaeI	CATG	4 cut(s)	287, 870, 953, 995
FatI	CATG	4 cut(s)	283, 866, 949, 991
FauNDI	CATATG	1 cut(s)	669
Fnu4HI	GCNGC	5 cut(s)	45, 375, 468, 939, 989
FokI	GGATG	3 cut(s)	414, 707, 974
FriOI	GRGCYC	1 cut(s)	527
Fsp4HI	GCNGC	5 cut(s)	45, 375, 468, 939, 989
GlaI	GCGC	1 cut(s)	79
GluI	GCNGC	5 cut(s)	45, 375, 468, 939, 989
HaeII	RGCGCY	1 cut(s)	81
HaeIII	GGCC	1 cut(s)	393
HapII	CCGG	2 cut(s)	33, 49
HhaI	GCGC	1 cut(s)	80
Hin1I	GRCGYC	1 cut(s)	78
Hin1II	CATG	4 cut(s)	287, 870, 953, 995
Hin6I	GCGC	1 cut(s)	78
HinP1I	GCGC	1 cut(s)	78
HincII	GTYRAC	2 cut(s)	781, 955
HindII	GTYRAC	2 cut(s)	781, 955
HindIII	AAGCTT	3 cut(s)	135, 716, 833
HinfI	GANTC	4 cut(s)	28, 621, 734, 740
HpaII	CCGG	2 cut(s)	33, 49
Hpy166II	GTNNAC	5 cut(s)	73, 499, 781, 955, 1002
Hpy188I	TCNGA	7 cut(s)	27, 115, 273, 385, 529, 739, 762
Hpy188III	TCNNGA	3 cut(s)	64, 66, 625
Hpy8I	GTNNAC	5 cut(s)	73, 499, 781, 955, 1002
HpyAV	CCTTC	2 cut(s)	205, 282
HpyCH4IV	ACGT	1 cut(s)	39
HpyCH4V	TGCA	7 cut(s)	133, 467, 680, 792, 839, 922, 991
HpyF10VI	GCNNNNNNNGC	5 cut(s)	86, 143, 453, 473, 923
HpyF3I	CTNAG	6 cut(s)	20, 165, 189, 518, 711, 738
HpySE526I	ACGT	1 cut(s)	39
Hsp92I	GRCGYC	1 cut(s)	78
Hsp92II	CATG	4 cut(s)	287, 870, 953, 995
HspAI	GCGC	1 cut(s)	78
KasI	GGCGCC	1 cut(s)	77
Kzo9I	GATC	1 cut(s)	60
LmnI	GCTCC	2 cut(s)	115, 522
LpnPI	CCDG	8 cut(s)	46, 62, 261, 419, 433, 587, 944, 971
Lsp1109I	GCAGC	5 cut(s)	31, 361, 479, 950, 975
MaeII	ACGT	1 cut(s)	39
MaeIII	GTNAC	1 cut(s)	436
MalI	GATC	1 cut(s)	62
MboI	GATC	1 cut(s)	60
MboII	GAAGA	4 cut(s)	95, 329, 427, 573
MfeI	CAATTG	1 cut(s)	119
MhlI	GDGCHC	2 cut(s)	148, 527
MluCI	AATT	8 cut(s)	11, 119, 234, 247, 558, 628, 640, 927
Mly113I	GGCGCC	1 cut(s)	78
MlyI	GAGTC	2 cut(s)	22, 749
MmeI	TCCRAC	2 cut(s)	159, 469
MnlI	CCTC	9 cut(s)	394, 397, 441, 513, 604, 718, 804, 907, 959
MseI	TTAA	1 cut(s)	930
MslI	CAYNNNNRTG	2 cut(s)	159, 350
MspI	CCGG	2 cut(s)	33, 49
MspR9I	CCNGG	3 cut(s)	33, 49, 959
MunI	CAATTG	1 cut(s)	119
MvaI	CCWGG	1 cut(s)	959
MwoI	GCNNNNNNNGC	5 cut(s)	86, 143, 453, 473, 923
NarI	GGCGCC	1 cut(s)	78
NciI	CCSGG	2 cut(s)	33, 49
NdeI	CATATG	1 cut(s)	669
NdeII	GATC	1 cut(s)	60
NlaIII	CATG	4 cut(s)	287, 870, 953, 995
NlaIV	GGNNCC	1 cut(s)	79
NmeAIII	GCCGAG	1 cut(s)	115
NmuCI	GTSAC	1 cut(s)	436
NspI	RCATGY	1 cut(s)	995
PaeR7I	CTCGAG	1 cut(s)	64
PaqCI	CACCTGC	1 cut(s)	582
PfeI	GAWTC	2 cut(s)	621, 734
PflMI	CCANNNNNTGG	1 cut(s)	433
PfoI	TCCNGGA	1 cut(s)	31
PkrI	GCNGC	5 cut(s)	46, 376, 469, 940, 990
PleI	GAGTC	2 cut(s)	22, 748
PluTI	GGCGCC	1 cut(s)	81
PpsI	GAGTC	2 cut(s)	22, 748
PsiI	TTATAA	2 cut(s)	246, 336
Psp124BI	GAGCTC	1 cut(s)	527
Psp6I	CCWGG	1 cut(s)	957
PspGI	CCWGG	1 cut(s)	957
PspN4I	GGNNCC	1 cut(s)	79
RsaI	GTAC	1 cut(s)	1003
RsaNI	GTAC	1 cut(s)	1002
RseI	CAYNNNNRTG	2 cut(s)	159, 350
SacI	GAGCTC	1 cut(s)	527
SaqAI	TTAA	1 cut(s)	930
SatI	GCNGC	5 cut(s)	45, 375, 468, 939, 989
Sau3AI	GATC	1 cut(s)	60
SchI	GAGTC	2 cut(s)	22, 749
ScrFI	CCNGG	3 cut(s)	33, 49, 959
SduI	GDGCHC	2 cut(s)	148, 527
SfcI	CTRYAG	1 cut(s)	655
SfoI	GGCGCC	1 cut(s)	79
Sfr274I	CTCGAG	1 cut(s)	64
SlaI	CTCGAG	1 cut(s)	64
SmiMI	CAYNNNNRTG	2 cut(s)	159, 350
SmlI	CTYRAG	1 cut(s)	64
SmoI	CTYRAG	1 cut(s)	64
Sse9I	AATT	8 cut(s)	11, 119, 234, 247, 558, 628, 640, 927
SsiI	CCGC	1 cut(s)	911
SspDI	GGCGCC	1 cut(s)	77
SstI	GAGCTC	1 cut(s)	527
StyD4I	CCNGG	3 cut(s)	31, 47, 957
StyI	CCWWGG	2 cut(s)	340, 483
TaiI	ACGT	1 cut(s)	42
TaqI	TCGA	2 cut(s)	65, 626
TasI	AATT	8 cut(s)	11, 119, 234, 247, 558, 628, 640, 927
TatI	WGTACW	1 cut(s)	1001
TfiI	GAWTC	2 cut(s)	621, 734
Tru1I	TTAA	1 cut(s)	930
Tru9I	TTAA	1 cut(s)	930
TscAI	CASTG	1 cut(s)	595
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	5 cut(s)	44, 374, 467, 938, 988
Tsp45I	GTSAC	1 cut(s)	436
TspDTI	ATGAA	4 cut(s)	24, 224, 573, 582
TspRI	CASTG	1 cut(s)	595
Van91I	CCANNNNNTGG	1 cut(s)	433
XapI	RAATTY	2 cut(s)	628, 640
XceI	RCATGY	1 cut(s)	995
XhoI	CTCGAG	1 cut(s)	64

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