Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0007177

Physical Location & Seq

Genomic Coordinates Reverse (-)

9928395 .. 9932635

Gene Structure 4241 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG066300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGGAGGGGTTGGTGCTTGTTCATACACCATTGATTCCTAGAAAGAAGCTTCCTTTGTTGGCTTTGGTGGATGCTCTACCATCTTGTACCGCTCTTTCTAGAAAACCCATCACACCCTCAATAAGATATAGAGAGTTATCACGATTGGCGGGCAGCAAAGTCCGAGTCCAAGCATCTAATGTTAGTATTGGATCTGGAGGCTATGAAAGCGGGGAGGAAAATAAGAAGCAGAAAATTGTTTCCAGTGATGCAAACAACAACAGTTCATCGGAAGTTGAGAAGCCTCCAATTCAAATCCCTTATCCTCTCTCTGTAGCTCTTGTTCTACTTGGGTGTGGCTTGCTGTTTTCTCTGATTGCCTTTGTGAGAGGAGGACCTTCAACAATTTTAGCAGCAATTGCAAAATCAGGCTTCACAGCTGCATTCTCTTTAATATTTGTTTCAGAAATTGGCGACAAGACATTCTTCATTGCTGCACTCTTGGCCATGCAATATGAGAAAGGACTGGTTCTGTTGGGGTCAATGGGTGCTCTTGCACTTATGACAATTCTGTCTGTCATTATTGGGCGTATATTTCATTCGGTGCCTGCTCAGTTCCAGACAACCTTGCCAATTGGAGAATATGCTGCTGTAACTCTTTTACTATTCTTTGGTCTCAAATCAATAAAAGATGCATGGGACCTTCCATCAAATGTTGTTGAGAGTGGTGATAAAAGCAGCCCTGAGCTTGATGAATATGCTGAAGCAGAGGAGCTTGTAAAACAGCAGGCATCAAGGCGGCTCACTAATCCACTTGCAATTATTTGGAAATCATTCAGCCTTGTATTTGTTGCTGAATGGGGAGATCGCTCAATGCTTGCAACAATCGCTCTGGGTGCTGCACAGTCTCCATGGGGTGTAGCGGGTGGAGCAATTGCTGGACACGCACTTGCTACTTTCATTGCCGTTCTAGGAGGTGCATTTCTTGCCAAATACATTTCTGAGAAACTGGTTGGCTACATTGGTGGTGCTCTGTTTCTAGTTTTTGCAGTAGCTACATTTTTTGGAGTTTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009528 GO:0009536 GO:0009706 GO:0009941 GO:0016020 GO:0019866 GO:0031090 GO:0031967 GO:0031969 GO:0031975 GO:0042170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

UPF0016

Protein Analysis

351

Amino Acids

37.23

Weight (kDa)

8.73

Isoelectric Point (pI)

31.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GDT1	PF01169	140 - 218	8.9e-17	Divalent cation/proton antiporter GDT1
GDT1	PF01169	269 - 343	7e-24	Divalent cation/proton antiporter GDT1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0007177)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G13590 AT4G13590
fragaria_vesca	FvH4_4g05550 FvH4_4g05550 FvH4_4g05550 FvH4_4g05550
malus_domestica	MD13G1229100.v1.1 MD13G1229200.v1.1 MD13G1229400.v1.1 MD16G1235000.v1.1 MD16G1235100.v1.1
prunus_persica	Prupe.1G057500_v2.0.a1
pyrus_communis	pycom13g20220
rosa_chinensis	RchiOBHm_Chr4g0396661
rosa_laevigata	RLG00000009512
rosa_multiflora	Rmu_sc0006586.1_g000015 Rmu_sc0010969.1_g000009
rosa_roxburghii	Rroxscaffold_5G00341520
rosa_rugosa	Rorug03G0348200 Rorug03G0348200
rosa_samantha	Rh4AG071100 Rh4BG069100 Rh4CG076900 Rh4DG066300
rosa_wichuraiana	Rw4G005680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	550
AccB1I	GGYRCC	1 cut(s)	583
AccBSI	CCGCTC	1 cut(s)	92
AciI	CCGC	5 cut(s)	90, 149, 210, 778, 902
AclWI	GGATC	1 cut(s)	199
AcoI	YGGCCR	1 cut(s)	483
AcuI	CTGAAG	1 cut(s)	762
AfaI	GTAC	1 cut(s)	88
AgsI	TTSAA	2 cut(s)	293, 381
AluBI	AGCT	6 cut(s)	49, 317, 419, 727, 754, 1034
AluI	AGCT	6 cut(s)	49, 317, 419, 727, 754, 1034
Alw21I	GWGCWC	2 cut(s)	532, 1012
Alw26I	GTCTC	2 cut(s)	659, 891
AlwI	GGATC	1 cut(s)	199
AoxI	GGCC	1 cut(s)	483
ApeKI	GCWGC	7 cut(s)	153, 392, 419, 473, 626, 717, 878
ArsI	GACNNNNNNTTYG	2 cut(s)	150, 182
Asp700I	GAANNNNTTC	1 cut(s)	812
AspS9I	GGNCC	2 cut(s)	374, 679
AsuHPI	GGTGA	1 cut(s)	719
AvaII	GGWCC	2 cut(s)	374, 679
BalI	TGGCCA	1 cut(s)	485
BanI	GGYRCC	1 cut(s)	583
Bbv12I	GWGCWC	2 cut(s)	532, 1012
BbvI	GCAGC	7 cut(s)	165, 404, 406, 460, 613, 729, 865
BccI	CCATC	3 cut(s)	88, 116, 694
BceAI	ACGGC	1 cut(s)	929
BcoDI	GTCTC	2 cut(s)	659, 891
BfaI	CTAG	4 cut(s)	39, 99, 950, 1019
BfmI	CTRYAG	1 cut(s)	312
BisI	GCNGC	8 cut(s)	154, 393, 420, 474, 627, 718, 779, 879
BlsI	GCNGC	8 cut(s)	155, 394, 421, 475, 628, 719, 780, 880
Bme18I	GGWCC	2 cut(s)	374, 679
BmgT120I	GGNCC	2 cut(s)	374, 679
BmiI	GGNNCC	2 cut(s)	585, 680
BmsI	GCATC	5 cut(s)	61, 182, 238, 661, 779
BpmI	CTGGAG	1 cut(s)	216
Bpu10I	CCTNAGC	1 cut(s)	723
BsaI	GGTCTC	1 cut(s)	659
BsaJI	CCNNGG	1 cut(s)	890
Bse1I	ACTGG	3 cut(s)	243, 510, 993
Bse3DI	GCAATG	2 cut(s)	468, 939
BseDI	CCNNGG	1 cut(s)	890
BseGI	GGATG	1 cut(s)	76
BseMI	GCAATG	2 cut(s)	468, 939
BseMII	CTCAG	3 cut(s)	605, 714, 972
BseNI	ACTGG	3 cut(s)	243, 510, 993
BseRI	GAGGAG	2 cut(s)	384, 764
BseXI	GCAGC	7 cut(s)	165, 404, 406, 460, 613, 729, 865
BsgI	GTGCAG	2 cut(s)	459, 864
BshFI	GGCC	1 cut(s)	485
BshNI	GGYRCC	1 cut(s)	583
BsiHKAI	GWGCWC	2 cut(s)	532, 1012
BslFI	GGGAC	1 cut(s)	692
BsmAI	GTCTC	2 cut(s)	659, 891
BsmFI	GGGAC	1 cut(s)	692
BsmI	GAATGC	1 cut(s)	422
BsnI	GGCC	1 cut(s)	485
Bso31I	GGTCTC	1 cut(s)	659
Bsp1286I	GDGCHC	2 cut(s)	532, 1012
Bsp143I	GATC	2 cut(s)	191, 844
Bsp19I	CCATGG	1 cut(s)	890
BspACI	CCGC	5 cut(s)	90, 149, 210, 778, 902
BspANI	GGCC	1 cut(s)	485
BspCNI	CTCAG	3 cut(s)	604, 715, 973
BspLI	GGNNCC	2 cut(s)	585, 680
BspPI	GGATC	1 cut(s)	199
BspT107I	GGYRCC	1 cut(s)	583
BspTNI	GGTCTC	1 cut(s)	659
BsrBI	CCGCTC	1 cut(s)	92
BsrDI	GCAATG	2 cut(s)	468, 939
BsrI	ACTGG	3 cut(s)	243, 510, 993
BssECI	CCNNGG	1 cut(s)	890
BssMI	GATC	2 cut(s)	191, 844
BssT1I	CCWWGG	1 cut(s)	890
Bst4CI	ACNGT	2 cut(s)	263, 885
BstAPI	GCANNNNNTGC	2 cut(s)	398, 965
BstC8I	GCNNGC	5 cut(s)	151, 341, 588, 768, 858
BstDEI	CTNAG	3 cut(s)	591, 723, 981
BstDSI	CCRYGG	1 cut(s)	890
BstF5I	GGATG	1 cut(s)	76
BstKTI	GATC	2 cut(s)	194, 847
BstMAI	GTCTC	2 cut(s)	659, 891
BstMBI	GATC	2 cut(s)	191, 844
BstMWI	GCNNNNNNNGC	8 cut(s)	207, 398, 482, 866, 875, 908, 923, 965
BstSFI	CTRYAG	1 cut(s)	312
BstV1I	GCAGC	7 cut(s)	165, 404, 406, 460, 613, 729, 865
BstX2I	RGATCY	1 cut(s)	191
BstYI	RGATCY	1 cut(s)	191
BsuRI	GGCC	1 cut(s)	485
BtgI	CCRYGG	1 cut(s)	890
BtsCI	GGATG	1 cut(s)	76
BtsIMutI	CAGTG	1 cut(s)	250
Cac8I	GCNNGC	5 cut(s)	151, 341, 588, 768, 858
Cfr13I	GGNCC	2 cut(s)	374, 679
Csp6I	GTAC	1 cut(s)	87
CviAII	CATG	3 cut(s)	487, 675, 891
CviQI	GTAC	1 cut(s)	87
DdeI	CTNAG	3 cut(s)	591, 723, 981
DpnI	GATC	2 cut(s)	193, 846
DpnII	GATC	2 cut(s)	191, 844
DrdI	GACNNNNNNGTC	1 cut(s)	550
DseDI	GACNNNNNNGTC	1 cut(s)	550
EaeI	YGGCCR	1 cut(s)	483
Eco130I	CCWWGG	1 cut(s)	890
Eco31I	GGTCTC	1 cut(s)	659
Eco47I	GGWCC	2 cut(s)	374, 679
Eco57I	CTGAAG	1 cut(s)	762
EcoO109I	RGGNCCY	2 cut(s)	374, 679
EcoT14I	CCWWGG	1 cut(s)	890
EcoT22I	ATGCAT	1 cut(s)	676
ErhI	CCWWGG	1 cut(s)	890
FaeI	CATG	3 cut(s)	490, 678, 894
FalI	AAGNNNNNCTT	2 cut(s)	449, 481
FaqI	GGGAC	1 cut(s)	692
FatI	CATG	3 cut(s)	486, 674, 890
FauI	CCCGC	3 cut(s)	142, 203, 895
Fnu4HI	GCNGC	8 cut(s)	154, 393, 420, 474, 627, 718, 779, 879
FokI	GGATG	1 cut(s)	83
Fsp4HI	GCNGC	8 cut(s)	154, 393, 420, 474, 627, 718, 779, 879
FspBI	CTAG	4 cut(s)	39, 99, 950, 1019
GluI	GCNGC	8 cut(s)	154, 393, 420, 474, 627, 718, 779, 879
GsuI	CTGGAG	1 cut(s)	216
HaeIII	GGCC	1 cut(s)	485
Hin1II	CATG	3 cut(s)	490, 678, 894
HindIII	AAGCTT	1 cut(s)	47
HinfI	GANTC	2 cut(s)	34, 165
HphI	GGTGA	1 cut(s)	719
Hpy188I	TCNGA	6 cut(s)	164, 271, 354, 445, 982, 1055
Hpy188III	TCNNGA	4 cut(s)	99, 141, 195, 598
HpyAV	CCTTC	2 cut(s)	387, 692
HpyCH4III	ACNGT	2 cut(s)	263, 885
HpyF10VI	GCNNNNNNNGC	8 cut(s)	207, 398, 482, 866, 875, 908, 923, 965
HpyF3I	CTNAG	3 cut(s)	591, 723, 981
Hsp92II	CATG	3 cut(s)	490, 678, 894
Kzo9I	GATC	2 cut(s)	191, 844
LmnI	GCTCC	2 cut(s)	751, 908
Lsp1109I	GCAGC	7 cut(s)	165, 404, 406, 460, 613, 729, 865
LweI	GCATC	5 cut(s)	61, 182, 238, 661, 779
MaeI	CTAG	4 cut(s)	39, 99, 950, 1019
MaeIII	GTNAC	1 cut(s)	631
MalI	GATC	2 cut(s)	193, 846
MbiI	CCGCTC	1 cut(s)	92
MboI	GATC	2 cut(s)	191, 844
MboII	GAAGA	1 cut(s)	457
MfeI	CAATTG	3 cut(s)	396, 612, 912
MflI	RGATCY	1 cut(s)	191
MhlI	GDGCHC	2 cut(s)	532, 1012
MlsI	TGGCCA	1 cut(s)	485
MluCI	AATT	9 cut(s)	234, 288, 384, 396, 447, 546, 612, 798, 912
MluNI	TGGCCA	1 cut(s)	485
MlyI	GAGTC	1 cut(s)	174
MnlI	CCTC	9 cut(s)	127, 191, 208, 294, 315, 362, 365, 742, 947
Mox20I	TGGCCA	1 cut(s)	485
Mph1103I	ATGCAT	1 cut(s)	676
MroXI	GAANNNNTTC	1 cut(s)	812
MscI	TGGCCA	1 cut(s)	485
MseI	TTAA	1 cut(s)	431
Msp20I	TGGCCA	1 cut(s)	485
MspA1I	CMGCKG	1 cut(s)	419
MunI	CAATTG	3 cut(s)	396, 612, 912
Mva1269I	GAATGC	1 cut(s)	422
MwoI	GCNNNNNNNGC	8 cut(s)	207, 398, 482, 866, 875, 908, 923, 965
NcoI	CCATGG	1 cut(s)	890
NdeII	GATC	2 cut(s)	191, 844
NlaIII	CATG	3 cut(s)	490, 678, 894
NlaIV	GGNNCC	2 cut(s)	585, 680
NsiI	ATGCAT	1 cut(s)	676
PctI	GAATGC	1 cut(s)	422
PdmI	GAANNNNTTC	1 cut(s)	812
PfeI	GAWTC	1 cut(s)	34
PkrI	GCNGC	8 cut(s)	155, 394, 421, 475, 628, 719, 780, 880
PleI	GAGTC	1 cut(s)	173
PpsI	GAGTC	1 cut(s)	173
PpuMI	RGGWCCY	2 cut(s)	374, 679
Psp5II	RGGWCCY	2 cut(s)	374, 679
PspN4I	GGNNCC	2 cut(s)	585, 680
PspPI	GGNCC	2 cut(s)	374, 679
PspPPI	RGGWCCY	2 cut(s)	374, 679
PsrI	GAACNNNNNNTAC	2 cut(s)	306, 338
PsuI	RGATCY	1 cut(s)	191
PvuII	CAGCTG	1 cut(s)	419
RsaI	GTAC	1 cut(s)	88
RsaNI	GTAC	1 cut(s)	87
SaqAI	TTAA	1 cut(s)	431
SatI	GCNGC	8 cut(s)	154, 393, 420, 474, 627, 718, 779, 879
Sau3AI	GATC	2 cut(s)	191, 844
Sau96I	GGNCC	2 cut(s)	374, 679
SchI	GAGTC	1 cut(s)	174
SduI	GDGCHC	2 cut(s)	532, 1012
SfaNI	GCATC	5 cut(s)	61, 182, 238, 661, 779
SfcI	CTRYAG	1 cut(s)	312
SinI	GGWCC	2 cut(s)	374, 679
Sse9I	AATT	9 cut(s)	234, 288, 384, 396, 447, 546, 612, 798, 912
SsiI	CCGC	5 cut(s)	90, 149, 210, 778, 902
SspI	AATATT	1 cut(s)	435
SspMI	CTAG	4 cut(s)	39, 99, 950, 1019
StyI	CCWWGG	1 cut(s)	890
TaaI	ACNGT	2 cut(s)	263, 885
TasI	AATT	9 cut(s)	234, 288, 384, 396, 447, 546, 612, 798, 912
TauI	GCSGC	1 cut(s)	781
TfiI	GAWTC	1 cut(s)	34
Tru1I	TTAA	1 cut(s)	431
Tru9I	TTAA	1 cut(s)	431
TscAI	CASTG	1 cut(s)	250
TseI	GCWGC	7 cut(s)	153, 392, 419, 473, 626, 717, 878
TspDTI	ATGAA	7 cut(s)	11, 219, 255, 457, 566, 747, 928
TspRI	CASTG	1 cut(s)	250
VpaK11BI	GGWCC	2 cut(s)	374, 679
XbaI	TCTAGA	1 cut(s)	98
XmnI	GAANNNNTTC	1 cut(s)	812
XspI	CTAG	4 cut(s)	39, 99, 950, 1019
Zsp2I	ATGCAT	1 cut(s)	676

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