Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0015480

Physical Location & Seq

Genomic Coordinates Forward (+)

67974128 .. 67978286

Gene Structure 4159 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG472600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGCGACGACAGGGCGCAAGTGGTGATGAAATAGTTGAAGCTCTCATTGCCAACAGTGCGACGTTTGAGAAAAAGACAGTGTTCTCACAGGAGAAATATAGGCTTAAGAAGCAAAAAAAGTATGCTCCCATTGTACTTCTCAGGCGGCCTTTCACTAGAAGTATATGCGAGGCGTACTTGAAGAAATATCCGGTTAGAATTGGATTCTTGCGGATGGATACGTTATGTCTGCTGCTTTCCATGGCTAATGTTTCTGCTAATTCCGATGTCCTTGTAGTCGACATGGTTGGAGGGCTTCTTACTGGTGCTGTGGCAGAGCGTTTAGGAGGTACAGGTTATGTCTGCAATACATATCCTGGTGGCTCACCTTATCCTATGGATATAGCGAGGATATTCAACTTTGGAGAAGAAATTTGCAAGAGGATTGTGAGGTCTCCTCTGGCTGACCTTTTCTCCGTCCAGACTGAAAAGTCAAAAGTCTCGAGTCACAATGGGGACTCTTGTAGCATGGAAATTGAATCAAATGAACAAATATCTTCAACGGCTGGCACGGAAGAAGTTTCTCTTGCGTCTGAGAGTATGATATCAGATCTTATTCCTGAAACTACCTATTCTGTAGAAAGAAAACCGAGCAAATCTGCAAAACTAGGAGAAAAAGCACCGCATGAAATCATCAGCTTGTGGAAAGAGAATGGCTTCACTAGTTTAATAATAGCAGCACCAGAGCTGGATACGTGGAGTCTAGTTAAAGAGATACTGCCACTTCTGTCAAATTCTGCTCCTTTTGCTATTTATCACCAGTATCTTCAGCCGCTCGCAACATGCATGCACAATCTACAAGTGGGGAAAATGGCAGTTGGCTTGCAAATTTCAGAACCTTGGTTACGTGAATATCAGGTACTTCCATCAAGAACCCATCCATGTATGCAGATGAATGGATTTGGTGGGTACATTCTCAGCGGGACCAAGATATGTACCAACAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001510 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0030488 GO:0031515 GO:0032259 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0034708 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0043527 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:1901360 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Gcd10p

Protein Analysis

328

Amino Acids

36.26

Weight (kDa)

8.04

Isoelectric Point (pI)

51.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Gcd10p	PF04189	1 - 160	1.7e-42	Gcd10p 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: OG0015480)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45730
fragaria_vesca	FvH4_2g38570
malus_domestica	MD08G1013700.v1.1 MD15G1013300.v1.1
prunus_persica	Prupe.1G366700_v2.0.a1
pyrus_communis	pycom08g01240
rosa_chinensis	RchiOBHm_Chr6g0302731
rosa_laevigata	RLG00000011143
rosa_multiflora	Rmu_sc0009897.1_g000006
rosa_roxburghii	Rroxscaffold_7G00165370
rosa_rugosa	Rorug06G0316600
rosa_samantha	Rh6AG429900 Rh6BG472600 Rh6CG442400 Rh6DG429100
rosa_wichuraiana	Rw6G037230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	469
AccBSI	CCGCTC	1 cut(s)	814
AccI	GTMKAC	1 cut(s)	279
AciI	CCGC	5 cut(s)	145, 211, 662, 812, 960
AcsI	RAATTY	3 cut(s)	411, 772, 867
AcuI	CTGAAG	1 cut(s)	791
AfaI	GTAC	6 cut(s)	135, 176, 331, 900, 950, 976
AflII	CTTAAG	1 cut(s)	104
AgsI	TTSAA	5 cut(s)	38, 181, 397, 518, 540
AhlI	ACTAGT	1 cut(s)	701
AjnI	CCWGG	1 cut(s)	355
AluBI	AGCT	3 cut(s)	41, 678, 727
AluI	AGCT	3 cut(s)	41, 678, 727
Alw26I	GTCTC	2 cut(s)	438, 484
Ama87I	CYCGRG	1 cut(s)	481
AoxI	GGCC	1 cut(s)	146
ApeKI	GCWGC	2 cut(s)	232, 716
ApoI	RAATTY	3 cut(s)	411, 772, 867
Asp700I	GAANNNNTTC	1 cut(s)	695
AspLEI	GCGC	1 cut(s)	17
AspS9I	GGNCC	1 cut(s)	963
AsuHPI	GGTGA	3 cut(s)	35, 357, 788
AvaI	CYCGRG	1 cut(s)	481
AvaII	GGWCC	1 cut(s)	963
BbvI	GCAGC	2 cut(s)	219, 728
BccI	CCATC	3 cut(s)	208, 913, 924
BceAI	ACGGC	1 cut(s)	558
BciT130I	CCWGG	1 cut(s)	357
BciVI	GTATCC	2 cut(s)	211, 724
BcoDI	GTCTC	2 cut(s)	438, 484
BcuI	ACTAGT	1 cut(s)	701
BfaI	CTAG	4 cut(s)	156, 647, 702, 743
BfmI	CTRYAG	1 cut(s)	615
BfrI	CTTAAG	1 cut(s)	104
BfuI	GTATCC	2 cut(s)	211, 724
BglII	AGATCT	1 cut(s)	589
BisI	GCNGC	4 cut(s)	146, 233, 717, 812
BlsI	GCNGC	4 cut(s)	147, 234, 718, 813
Bme1390I	CCNGG	1 cut(s)	357
Bme18I	GGWCC	1 cut(s)	963
BmeT110I	CYCGRG	1 cut(s)	481
BmgT120I	GGNCC	1 cut(s)	963
BmiI	GGNNCC	1 cut(s)	964
BmrFI	CCNGG	1 cut(s)	357
BplI	GAGNNNNNCTC	2 cut(s)	421, 453
BsaAI	YACGTR	2 cut(s)	735, 887
BsaI	GGTCTC	1 cut(s)	438
BsaJI	CCNNGG	2 cut(s)	240, 878
BsaWI	WCCGGW	1 cut(s)	190
BsaXI	ACNNNNNCTCC	2 cut(s)	437, 467
Bse1I	ACTGG	2 cut(s)	307, 799
Bse3DI	GCAATG	1 cut(s)	45
BseBI	CCWGG	1 cut(s)	357
BseDI	CCNNGG	2 cut(s)	240, 878
BseGI	GGATG	2 cut(s)	219, 916
BseMI	GCAATG	1 cut(s)	45
BseMII	CTCAG	3 cut(s)	154, 564, 970
BseNI	ACTGG	2 cut(s)	307, 799
BseRI	GAGGAG	1 cut(s)	426
BseXI	GCAGC	2 cut(s)	219, 728
BshFI	GGCC	1 cut(s)	148
BsiHKCI	CYCGRG	1 cut(s)	481
BsiSI	CCGG	1 cut(s)	191
BslFI	GGGAC	2 cut(s)	509, 976
BsmAI	GTCTC	2 cut(s)	438, 484
BsmFI	GGGAC	2 cut(s)	509, 976
BsnI	GGCC	1 cut(s)	148
Bso31I	GGTCTC	1 cut(s)	438
BsoBI	CYCGRG	1 cut(s)	481
Bsp143I	GATC	1 cut(s)	589
Bsp19I	CCATGG	1 cut(s)	240
BspACI	CCGC	5 cut(s)	145, 211, 662, 812, 960
BspANI	GGCC	1 cut(s)	148
BspCNI	CTCAG	3 cut(s)	153, 565, 969
BspLI	GGNNCC	1 cut(s)	964
BspTI	CTTAAG	1 cut(s)	104
BspTNI	GGTCTC	1 cut(s)	438
BsrBI	CCGCTC	1 cut(s)	814
BsrDI	GCAATG	1 cut(s)	45
BsrI	ACTGG	2 cut(s)	307, 799
BssECI	CCNNGG	2 cut(s)	240, 878
BssMI	GATC	1 cut(s)	589
BssT1I	CCWWGG	2 cut(s)	240, 878
Bst2UI	CCWGG	1 cut(s)	357
Bst4CI	ACNGT	2 cut(s)	56, 79
BstAFI	CTTAAG	1 cut(s)	104
BstBAI	YACGTR	2 cut(s)	735, 887
BstC8I	GCNNGC	4 cut(s)	547, 816, 827, 863
BstDEI	CTNAG	3 cut(s)	140, 573, 956
BstDSI	CCRYGG	1 cut(s)	240
BstF5I	GGATG	2 cut(s)	219, 916
BstHHI	GCGC	1 cut(s)	17
BstKTI	GATC	1 cut(s)	592
BstMAI	GTCTC	2 cut(s)	438, 484
BstMBI	GATC	1 cut(s)	589
BstMWI	GCNNNNNNNGC	4 cut(s)	47, 56, 109, 785
BstNI	CCWGG	1 cut(s)	357
BstNSI	RCATGY	2 cut(s)	825, 829
BstSCI	CCNGG	1 cut(s)	355
BstSFI	CTRYAG	1 cut(s)	615
BstV1I	GCAGC	2 cut(s)	219, 728
BstX2I	RGATCY	1 cut(s)	589
BstYI	RGATCY	1 cut(s)	589
BsuI	GTATCC	2 cut(s)	211, 724
BsuRI	GGCC	1 cut(s)	148
BtgI	CCRYGG	1 cut(s)	240
BtsCI	GGATG	2 cut(s)	219, 916
BtsIMutI	CAGTG	2 cut(s)	61, 84
Cac8I	GCNNGC	4 cut(s)	547, 816, 827, 863
CfoI	GCGC	1 cut(s)	17
Cfr13I	GGNCC	1 cut(s)	963
CseI	GACGC	1 cut(s)	558
Csp6I	GTAC	6 cut(s)	134, 175, 330, 899, 949, 975
CviAII	CATG	7 cut(s)	241, 283, 508, 665, 822, 826, 921
CviQI	GTAC	6 cut(s)	134, 175, 330, 899, 949, 975
DdeI	CTNAG	3 cut(s)	140, 573, 956
DpnI	GATC	1 cut(s)	591
DpnII	GATC	1 cut(s)	589
DrdI	GACNNNNNNGTC	1 cut(s)	469
DseDI	GACNNNNNNGTC	1 cut(s)	469
Eco130I	CCWWGG	2 cut(s)	240, 878
Eco31I	GGTCTC	1 cut(s)	438
Eco32I	GATATC	1 cut(s)	585
Eco47I	GGWCC	1 cut(s)	963
Eco57I	CTGAAG	1 cut(s)	791
Eco88I	CYCGRG	1 cut(s)	481
EcoRII	CCWGG	1 cut(s)	355
EcoRV	GATATC	1 cut(s)	585
EcoT14I	CCWWGG	2 cut(s)	240, 878
EcoT22I	ATGCAT	1 cut(s)	827
ErhI	CCWWGG	2 cut(s)	240, 878
FaeI	CATG	7 cut(s)	244, 286, 511, 668, 825, 829, 924
FalI	AAGNNNNNCTT	2 cut(s)	549, 581
FaqI	GGGAC	2 cut(s)	509, 976
FatI	CATG	7 cut(s)	240, 282, 507, 664, 821, 825, 920
FauI	CCCGC	1 cut(s)	953
FblI	GTMKAC	1 cut(s)	279
Fnu4HI	GCNGC	4 cut(s)	146, 233, 717, 812
FokI	GGATG	2 cut(s)	226, 903
Fsp4HI	GCNGC	4 cut(s)	146, 233, 717, 812
FspBI	CTAG	4 cut(s)	156, 647, 702, 743
GlaI	GCGC	1 cut(s)	16
GluI	GCNGC	4 cut(s)	146, 233, 717, 812
HaeIII	GGCC	1 cut(s)	148
HapII	CCGG	1 cut(s)	191
HgaI	GACGC	1 cut(s)	558
HhaI	GCGC	1 cut(s)	17
Hin1II	CATG	7 cut(s)	244, 286, 511, 668, 825, 829, 924
Hin6I	GCGC	1 cut(s)	15
HinP1I	GCGC	1 cut(s)	15
HincII	GTYRAC	1 cut(s)	280
HindII	GTYRAC	1 cut(s)	280
HinfI	GANTC	5 cut(s)	204, 484, 497, 518, 739
HpaII	CCGG	1 cut(s)	191
HphI	GGTGA	3 cut(s)	35, 357, 788
Hpy166II	GTNNAC	1 cut(s)	280
Hpy188I	TCNGA	4 cut(s)	265, 574, 589, 874
Hpy188III	TCNNGA	4 cut(s)	460, 481, 599, 909
Hpy8I	GTNNAC	1 cut(s)	280
Hpy99I	CGWCG	2 cut(s)	9, 64
HpyCH4III	ACNGT	2 cut(s)	56, 79
HpyCH4IV	ACGT	4 cut(s)	62, 221, 734, 886
HpyCH4V	TGCA	7 cut(s)	345, 417, 641, 825, 829, 865, 928
HpyF10VI	GCNNNNNNNGC	4 cut(s)	47, 56, 109, 785
HpyF3I	CTNAG	3 cut(s)	140, 573, 956
HpySE526I	ACGT	4 cut(s)	62, 221, 734, 886
Hsp92II	CATG	7 cut(s)	244, 286, 511, 668, 825, 829, 924
HspAI	GCGC	1 cut(s)	15
Kzo9I	GATC	1 cut(s)	589
LmnI	GCTCC	2 cut(s)	130, 784
Lsp1109I	GCAGC	2 cut(s)	219, 728
MaeI	CTAG	4 cut(s)	156, 647, 702, 743
MaeII	ACGT	4 cut(s)	62, 221, 734, 886
MaeIII	GTNAC	2 cut(s)	485, 882
MalI	GATC	1 cut(s)	591
MbiI	CCGCTC	1 cut(s)	814
MboI	GATC	1 cut(s)	589
MboII	GAAGA	5 cut(s)	193, 419, 528, 566, 797
MflI	RGATCY	1 cut(s)	589
MluCI	AATT	6 cut(s)	198, 259, 411, 513, 772, 867
MlyI	GAGTC	3 cut(s)	491, 493, 748
MmeI	TCCRAC	1 cut(s)	268
MnlI	CCTC	7 cut(s)	163, 284, 320, 381, 414, 423, 447
Mph1103I	ATGCAT	1 cut(s)	827
MroXI	GAANNNNTTC	1 cut(s)	695
MseI	TTAA	3 cut(s)	105, 707, 747
MspA1I	CMGCKG	1 cut(s)	960
MspCI	CTTAAG	1 cut(s)	104
MspI	CCGG	1 cut(s)	191
MspR9I	CCNGG	1 cut(s)	357
MvaI	CCWGG	1 cut(s)	357
MwoI	GCNNNNNNNGC	4 cut(s)	47, 56, 109, 785
NcoI	CCATGG	1 cut(s)	240
NdeII	GATC	1 cut(s)	589
NlaIII	CATG	7 cut(s)	244, 286, 511, 668, 825, 829, 924
NlaIV	GGNNCC	1 cut(s)	964
NmuCI	GTSAC	1 cut(s)	485
NsiI	ATGCAT	1 cut(s)	827
NspI	RCATGY	2 cut(s)	825, 829
PaeI	GCATGC	1 cut(s)	829
PaeR7I	CTCGAG	1 cut(s)	481
PdmI	GAANNNNTTC	1 cut(s)	695
PfeI	GAWTC	2 cut(s)	204, 518
PkrI	GCNGC	4 cut(s)	147, 234, 718, 813
PleI	GAGTC	3 cut(s)	491, 492, 747
PpsI	GAGTC	3 cut(s)	491, 492, 747
Ppu21I	YACGTR	2 cut(s)	735, 887
Psp6I	CCWGG	1 cut(s)	355
PspGI	CCWGG	1 cut(s)	355
PspN4I	GGNNCC	1 cut(s)	964
PspPI	GGNCC	1 cut(s)	963
PsrI	GAACNNNNNNTAC	2 cut(s)	867, 899
PsuI	RGATCY	1 cut(s)	589
RsaI	GTAC	6 cut(s)	135, 176, 331, 900, 950, 976
RsaNI	GTAC	6 cut(s)	134, 175, 330, 899, 949, 975
SalI	GTCGAC	1 cut(s)	278
SaqAI	TTAA	3 cut(s)	105, 707, 747
SatI	GCNGC	4 cut(s)	146, 233, 717, 812
Sau3AI	GATC	1 cut(s)	589
Sau96I	GGNCC	1 cut(s)	963
SchI	GAGTC	3 cut(s)	491, 493, 748
ScrFI	CCNGG	1 cut(s)	357
SfcI	CTRYAG	1 cut(s)	615
Sfr274I	CTCGAG	1 cut(s)	481
SinI	GGWCC	1 cut(s)	963
SlaI	CTCGAG	1 cut(s)	481
SmlI	CTYRAG	2 cut(s)	104, 481
SmoI	CTYRAG	2 cut(s)	104, 481
SpeI	ACTAGT	1 cut(s)	701
SphI	GCATGC	1 cut(s)	829
Sse9I	AATT	6 cut(s)	198, 259, 411, 513, 772, 867
SsiI	CCGC	5 cut(s)	145, 211, 662, 812, 960
SspMI	CTAG	4 cut(s)	156, 647, 702, 743
StyD4I	CCNGG	1 cut(s)	355
StyI	CCWWGG	2 cut(s)	240, 878
TaaI	ACNGT	2 cut(s)	56, 79
TaiI	ACGT	4 cut(s)	65, 224, 737, 889
TaqI	TCGA	2 cut(s)	279, 482
TasI	AATT	6 cut(s)	198, 259, 411, 513, 772, 867
TatI	WGTACW	1 cut(s)	133
TauI	GCSGC	2 cut(s)	148, 814
TfiI	GAWTC	2 cut(s)	204, 518
Tru1I	TTAA	3 cut(s)	105, 707, 747
Tru9I	TTAA	3 cut(s)	105, 707, 747
TscAI	CASTG	2 cut(s)	61, 84
TseFI	GTSAC	1 cut(s)	485
TseI	GCWGC	2 cut(s)	232, 716
Tsp45I	GTSAC	1 cut(s)	485
TspDTI	ATGAA	4 cut(s)	42, 540, 681, 947
TspGWI	ACGGA	2 cut(s)	445, 566
TspRI	CASTG	2 cut(s)	61, 84
Vha464I	CTTAAG	1 cut(s)	104
VpaK11BI	GGWCC	1 cut(s)	963
XapI	RAATTY	3 cut(s)	411, 772, 867
XceI	RCATGY	2 cut(s)	825, 829
XhoI	CTCGAG	1 cut(s)	481
XmiI	GTMKAC	1 cut(s)	279
XmnI	GAANNNNTTC	1 cut(s)	695
XspI	CTAG	4 cut(s)	156, 647, 702, 743
Zsp2I	ATGCAT	1 cut(s)	827

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