Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002671

Physical Location & Seq

Genomic Coordinates Reverse (-)

11251383 .. 11253972

Gene Structure 2590 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG076300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1267 bp

ATGACCATTTTGATGCTAGCGGGTGGAGAGGTTTTCACTTCCTTGCTTGGACTTCAAATTGCAAAGTCCAAGATTGCCAAATTTCATGATAACAAAGTTGATGTAGAACTCAACTCTTCTAATAAGGCCTTCTTCGATCGAATAGAGTTAGGTTTGGTTACCCTTTCACAGTTAGAGAGTGAGCAGAAACCTAACATTCATAATGGTTTAAAAACCTTTGACAAGGATATCAAGTACAAGTCTATTAGGTGTTTGGCCTATGTGGTTTCAGGTTATCTTCTAGTGGTTCATATAGGTGGTTCCAGTCTAATTTCATCGTACATAATCCTTGTTCCAAGTGCAAGACAAGTACTCAAAAACAAAGGCATTGAAATCCAAACCTTTGCTGTTTTCACCGCGGTTTCCACCTTTGCAAACTGTGGTTTTGTCCCCACAAACGAGAATATGATCATTTTCAAGAACAATTCTGGGCTTTTACTTCTTATAATTCCCCAAATCCTTCTTGGAAACACCTTATATCCCGTGATCCTTCGATTTGTGATTTGGGGTTTGGAGAAAATCACAAGGAGGGTGGAGTTCAGTTACATATTGAAGAATCATAATGAATTGGGTTACAGTCATATGCTATCTGGTCTTCATTCTCTTCTTCTACTTGCCACTGTCTTGGGGTTCATAGCAGTTCAGCTGATACTATTTTGTGCCATGGAGTGGAAATCTGAAGCCATGGACGGTCTGAGTGGCTATCAGAAATTTGTGGCGTCATTGTTTCAAACGGTGAATTCCAGGCATGCTGGTGAATCGGTTGTTGATCTCTCCATCATCTCTCCTGCAATCTTGGTGCTATTTGTCTTGATGATGTATCTTCCACCGTATACTACATTTGATCCAGCAATTGGTGGTTGTCAAGAAGGTGATGCTTCAGGAAAAGAAGAAATTCGAAATCCGAGAAAGACTTTGCTGGAGTCTCTAATATTCTCACAGCTTACTTATTTAACCATCTTTGTCATACTCGTTTGCATCACAGAGAGACAAAGGATGATGGAAGACCCCCTCAACTTCAATGTGTTGAATGTTGTCATAGAAGTAATAAGTGCATATGGAAATGTTGGGTTTACAACTGGCTACAGTTGTAAACGTCGACTGAAGGCGGAGGGTGATTGTATAGACAAATGGTACGGTTTGGTTGGAAGATTTAGTACTGAAGGAAAGTTCATCCTCATTCTTGTCATGTTCTTTGGAAGGCTAAAGAAATTCAGTATGAAGCAGG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005623 GO:0005886 GO:0006810 GO:0006811 GO:0006812 GO:0006813 GO:0006814 GO:0006950 GO:0006970 GO:0008150 GO:0008324 GO:0009628 GO:0009651 GO:0015075 GO:0015077 GO:0015081 GO:0015318 GO:0015672 GO:0016020 GO:0022857 GO:0022890 GO:0030001 GO:0034220 GO:0035725 GO:0044464 GO:0046873 GO:0050896 GO:0051179 GO:0051234 GO:0055085 GO:0071944 GO:0098655 GO:0098660 GO:0098662

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TrkH

Protein Analysis

422

Amino Acids

47.21

Weight (kDa)

8.9

Isoelectric Point (pI)

38.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TrkH	PF02386	72 - 288	1.2e-26	Cation transport protein
TrkH	PF02386	317 - 419	1.6e-07	Cation transport protein

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: OG0002671)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G10310
fragaria_vesca	FvH4_4g06400 FvH4_4g06412 FvH4_4g06420 FvH4_4g06420 FvH4_4g06420 FvH4_4g06420
malus_domestica	MD16G1240400.v1.1
prunus_persica	Prupe.1G066800_v2.0.a1 Prupe.1G067100_v2.0.a1
pyrus_communis	pycom16g20110
rosa_chinensis	RchiOBHm_Chr4g0398141 RchiOBHm_Chr4g0398151
rosa_laevigata	RLG00000009382 RLG00000009383 RLG00000035139
rosa_multiflora	Rmu_sc0002035.1_g000011 Rmu_sc0002378.1_g000014 Rmu_sc0002378.1_g000025 Rmu_sc0008195.1_g000011 Rmu_sc0023295.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023290 Rroxscaffold_5G00343040 Rroxscaffold_5G00343070
rosa_rugosa	Rorug04G0006300 Rorug04G0006600 Rorug05G0304200
rosa_samantha	Rh4AG083400 Rh4AG083500 Rh4BG081100 Rh4BG081300 Rh4CG090400 Rh4CG090600 Rh4DG076000 Rh4DG076300 Rh5BG384700 Rh5DG398100
rosa_wichuraiana	Rw4G006930 Rw4G006940 Rw5G035170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	485
AccB7I	CCANNNNNTGG	2 cut(s)	708, 893
AccI	GTMKAC	2 cut(s)	872, 1138
AccII	CGCG	1 cut(s)	398
AciI	CCGC	4 cut(s)	20, 396, 398, 1148
AclWI	GGATC	2 cut(s)	520, 878
AcsI	RAATTY	5 cut(s)	80, 749, 778, 933, 1250
AcuI	CTGAAG	4 cut(s)	738, 903, 1163, 1221
AcyI	GRCGYC	1 cut(s)	758
AfaI	GTAC	5 cut(s)	236, 320, 351, 1175, 1198
AfiI	CCNNNNNNNGG	2 cut(s)	708, 893
AgsI	TTSAA	7 cut(s)	56, 371, 457, 592, 770, 1060, 1069
AjnI	CCWGG	1 cut(s)	782
AluBI	AGCT	2 cut(s)	685, 982
AluI	AGCT	2 cut(s)	685, 982
Alw26I	GTCTC	2 cut(s)	969, 1021
AlwI	GGATC	2 cut(s)	520, 878
AoxI	GGCC	2 cut(s)	126, 255
ApoI	RAATTY	5 cut(s)	80, 749, 778, 933, 1250
Asp700I	GAANNNNTTC	1 cut(s)	933
AsuHPI	GGTGA	5 cut(s)	385, 787, 806, 923, 1166
AsuII	TTCGAA	1 cut(s)	937
AsuNHI	GCTAGC	1 cut(s)	16
BarI	GAAGNNNNNNTAC	2 cut(s)	1180, 1212
BbsI	GAAGAC	2 cut(s)	626, 1050
BccI	CCATC	3 cut(s)	824, 1004, 1033
BciT130I	CCWGG	1 cut(s)	784
BclI	TGATCA	1 cut(s)	447
BcoDI	GTCTC	2 cut(s)	969, 1021
BfaI	CTAG	2 cut(s)	17, 281
BfmI	CTRYAG	1 cut(s)	1123
BmcAI	AGTACT	2 cut(s)	351, 1198
Bme1390I	CCNGG	1 cut(s)	784
BmiI	GGNNCC	1 cut(s)	301
BmrFI	CCNGG	1 cut(s)	784
BmsI	GCATC	3 cut(s)	3, 904, 1026
BmtI	GCTAGC	1 cut(s)	20
BpiI	GAAGAC	2 cut(s)	626, 1050
BpmI	CTGGAG	1 cut(s)	980
Bpu14I	TTCGAA	1 cut(s)	937
BsaHI	GRCGYC	1 cut(s)	758
BsaJI	CCNNGG	3 cut(s)	396, 702, 723
Bsc4I	CCNNNNNNNGG	2 cut(s)	708, 893
Bse1I	ACTGG	2 cut(s)	303, 1123
BseBI	CCWGG	1 cut(s)	784
BseDI	CCNNGG	3 cut(s)	396, 702, 723
BseGI	GGATG	2 cut(s)	1041, 1212
BseLI	CCNNNNNNNGG	2 cut(s)	708, 893
BseMII	CTCAG	1 cut(s)	725
BseNI	ACTGG	2 cut(s)	303, 1123
Bsh1236I	CGCG	1 cut(s)	398
Bsh1285I	CGRYCG	1 cut(s)	139
BshFI	GGCC	2 cut(s)	128, 257
BsiEI	CGRYCG	1 cut(s)	139
BslFI	GGGAC	1 cut(s)	413
BslI	CCNNNNNNNGG	2 cut(s)	708, 893
BsmAI	GTCTC	2 cut(s)	969, 1021
BsmFI	GGGAC	1 cut(s)	413
BsnI	GGCC	2 cut(s)	128, 257
Bsp119I	TTCGAA	1 cut(s)	937
Bsp143I	GATC	5 cut(s)	136, 447, 525, 808, 883
Bsp19I	CCATGG	2 cut(s)	702, 723
BspACI	CCGC	4 cut(s)	20, 396, 398, 1148
BspANI	GGCC	2 cut(s)	128, 257
BspCNI	CTCAG	1 cut(s)	726
BspFNI	CGCG	1 cut(s)	398
BspHI	TCATGA	1 cut(s)	85
BspLI	GGNNCC	1 cut(s)	301
BspOI	GCTAGC	1 cut(s)	20
BspPI	GGATC	2 cut(s)	520, 878
BspT104I	TTCGAA	1 cut(s)	937
BsrI	ACTGG	2 cut(s)	303, 1123
BssECI	CCNNGG	3 cut(s)	396, 702, 723
BssMI	GATC	5 cut(s)	136, 447, 525, 808, 883
BssNAI	GTATAC	1 cut(s)	873
BssNI	GRCGYC	1 cut(s)	758
BssT1I	CCWWGG	2 cut(s)	702, 723
Bst1107I	GTATAC	1 cut(s)	873
Bst2UI	CCWGG	1 cut(s)	784
Bst4CI	ACNGT	9 cut(s)	171, 419, 617, 661, 731, 775, 870, 1127, 1178
Bst6I	CTCTTC	2 cut(s)	121, 648
BstACI	GRCGYC	1 cut(s)	758
BstBI	TTCGAA	1 cut(s)	937
BstC8I	GCNNGC	2 cut(s)	18, 789
BstDEI	CTNAG	1 cut(s)	734
BstDSI	CCRYGG	3 cut(s)	396, 702, 723
BstEII	GGTNACC	1 cut(s)	157
BstF5I	GGATG	2 cut(s)	1041, 1212
BstFNI	CGCG	1 cut(s)	398
BstKTI	GATC	5 cut(s)	139, 450, 528, 811, 886
BstMAI	GTCTC	2 cut(s)	969, 1021
BstMBI	GATC	5 cut(s)	136, 447, 525, 808, 883
BstMCI	CGRYCG	1 cut(s)	139
BstNI	CCWGG	1 cut(s)	784
BstNSI	RCATGY	1 cut(s)	791
BstPI	GGTNACC	1 cut(s)	157
BstSCI	CCNGG	1 cut(s)	782
BstSFI	CTRYAG	1 cut(s)	1123
BstUI	CGCG	1 cut(s)	398
BstV2I	GAAGAC	2 cut(s)	626, 1050
BstXI	CCANNNNNNTGG	1 cut(s)	664
BstZ17I	GTATAC	1 cut(s)	873
BsuRI	GGCC	2 cut(s)	128, 257
BtgI	CCRYGG	3 cut(s)	396, 702, 723
BtsCI	GGATG	2 cut(s)	1041, 1212
BtsIMutI	CAGTG	1 cut(s)	657
Cac8I	GCNNGC	2 cut(s)	18, 789
CciI	TCATGA	1 cut(s)	85
Cfr42I	CCGCGG	1 cut(s)	399
CseI	GACGC	1 cut(s)	747
Csp6I	GTAC	5 cut(s)	235, 319, 350, 1174, 1197
CspCI	CAANNNNNGTGG	2 cut(s)	552, 587
CviAII	CATG	5 cut(s)	86, 703, 724, 788, 1228
CviJI	RGCY	9 cut(s)	128, 257, 472, 685, 722, 741, 982, 1122, 1243
CviKI_1	RGCY	9 cut(s)	128, 257, 472, 685, 722, 741, 982, 1122, 1243
CviQI	GTAC	5 cut(s)	235, 319, 350, 1174, 1197
DdeI	CTNAG	1 cut(s)	734
DpnI	GATC	5 cut(s)	138, 449, 527, 810, 885
DpnII	GATC	5 cut(s)	136, 447, 525, 808, 883
DraI	TTTAAA	1 cut(s)	210
Eam1104I	CTCTTC	2 cut(s)	121, 648
EarI	CTCTTC	2 cut(s)	121, 648
EciI	GGCGGA	1 cut(s)	1163
Eco130I	CCWWGG	2 cut(s)	702, 723
Eco147I	AGGCCT	1 cut(s)	128
Eco32I	GATATC	1 cut(s)	229
Eco57I	CTGAAG	4 cut(s)	738, 903, 1163, 1221
Eco91I	GGTNACC	1 cut(s)	157
EcoO65I	GGTNACC	1 cut(s)	157
EcoRI	GAATTC	1 cut(s)	778
EcoRII	CCWGG	1 cut(s)	782
EcoRV	GATATC	1 cut(s)	229
EcoT14I	CCWWGG	2 cut(s)	702, 723
ErhI	CCWWGG	2 cut(s)	702, 723
FaeI	CATG	5 cut(s)	89, 706, 727, 791, 1231
FalI	AAGNNNNNCTT	2 cut(s)	116, 148
FaqI	GGGAC	1 cut(s)	413
FatI	CATG	5 cut(s)	85, 702, 723, 787, 1227
FauI	CCCGC	1 cut(s)	13
FauNDI	CATATG	2 cut(s)	621, 1096
FbaI	TGATCA	1 cut(s)	447
FblI	GTMKAC	2 cut(s)	872, 1138
FokI	GGATG	2 cut(s)	1048, 1199
FspBI	CTAG	2 cut(s)	17, 281
GsuI	CTGGAG	1 cut(s)	980
HaeIII	GGCC	2 cut(s)	128, 257
HgaI	GACGC	1 cut(s)	747
Hin1I	GRCGYC	1 cut(s)	758
Hin1II	CATG	5 cut(s)	89, 706, 727, 791, 1231
HincII	GTYRAC	1 cut(s)	1139
HindII	GTYRAC	1 cut(s)	1139
HinfI	GANTC	3 cut(s)	595, 797, 962
HphI	GGTGA	5 cut(s)	385, 787, 806, 923, 1166
Hpy166II	GTNNAC	4 cut(s)	873, 1113, 1133, 1139
Hpy188I	TCNGA	4 cut(s)	718, 735, 747, 945
Hpy188III	TCNNGA	5 cut(s)	86, 457, 850, 905, 921
Hpy8I	GTNNAC	4 cut(s)	873, 1113, 1133, 1139
Hpy99I	CGWCG	1 cut(s)	1140
HpyAV	CCTTC	7 cut(s)	139, 509, 539, 902, 1138, 1196, 1233
HpyCH4III	ACNGT	9 cut(s)	171, 419, 617, 661, 731, 775, 870, 1127, 1178
HpyCH4IV	ACGT	1 cut(s)	1135
HpyCH4V	TGCA	6 cut(s)	62, 341, 413, 830, 1017, 1094
HpyF3I	CTNAG	1 cut(s)	734
HpySE526I	ACGT	1 cut(s)	1135
Hsp92I	GRCGYC	1 cut(s)	758
Hsp92II	CATG	5 cut(s)	89, 706, 727, 791, 1231
Ksp22I	TGATCA	1 cut(s)	447
KspI	CCGCGG	1 cut(s)	399
Kzo9I	GATC	5 cut(s)	136, 447, 525, 808, 883
LweI	GCATC	3 cut(s)	3, 904, 1026
MaeI	CTAG	2 cut(s)	17, 281
MaeII	ACGT	1 cut(s)	1135
MaeIII	GTNAC	3 cut(s)	157, 581, 611
MalI	GATC	5 cut(s)	138, 449, 527, 810, 885
MboI	GATC	5 cut(s)	136, 447, 525, 808, 883
MfeI	CAATTG	1 cut(s)	891
MlyI	GAGTC	1 cut(s)	971
MmeI	TCCRAC	1 cut(s)	1165
MnlI	CCTC	5 cut(s)	22, 561, 1061, 1144, 1226
MroXI	GAANNNNTTC	1 cut(s)	933
MseI	TTAA	2 cut(s)	209, 992
MslI	CAYNNNNRTG	3 cut(s)	11, 294, 792
MspA1I	CMGCKG	2 cut(s)	398, 685
MspR9I	CCNGG	1 cut(s)	784
MunI	CAATTG	1 cut(s)	891
MvaI	CCWGG	1 cut(s)	784
MvnI	CGCG	1 cut(s)	398
NcoI	CCATGG	2 cut(s)	702, 723
NdeI	CATATG	2 cut(s)	621, 1096
NdeII	GATC	5 cut(s)	136, 447, 525, 808, 883
NheI	GCTAGC	1 cut(s)	16
NlaIII	CATG	5 cut(s)	89, 706, 727, 791, 1231
NlaIV	GGNNCC	1 cut(s)	301
NspI	RCATGY	1 cut(s)	791
NspV	TTCGAA	1 cut(s)	937
PaeI	GCATGC	1 cut(s)	791
PagI	TCATGA	1 cut(s)	85
PceI	AGGCCT	1 cut(s)	128
PdmI	GAANNNNTTC	1 cut(s)	933
PfeI	GAWTC	2 cut(s)	595, 797
PflMI	CCANNNNNTGG	2 cut(s)	708, 893
Ple19I	CGATCG	1 cut(s)	139
PleI	GAGTC	1 cut(s)	970
PpsI	GAGTC	1 cut(s)	970
PsiI	TTATAA	1 cut(s)	485
Psp6I	CCWGG	1 cut(s)	782
PspEI	GGTNACC	1 cut(s)	157
PspGI	CCWGG	1 cut(s)	782
PspN4I	GGNNCC	1 cut(s)	301
PvuI	CGATCG	1 cut(s)	139
PvuII	CAGCTG	1 cut(s)	685
RsaI	GTAC	5 cut(s)	236, 320, 351, 1175, 1198
RsaNI	GTAC	5 cut(s)	235, 319, 350, 1174, 1197
RseI	CAYNNNNRTG	3 cut(s)	11, 294, 792
SacII	CCGCGG	1 cut(s)	399
SalI	GTCGAC	1 cut(s)	1137
SaqAI	TTAA	2 cut(s)	209, 992
Sau3AI	GATC	5 cut(s)	136, 447, 525, 808, 883
ScaI	AGTACT	2 cut(s)	351, 1198
SchI	GAGTC	1 cut(s)	971
ScrFI	CCNGG	1 cut(s)	784
SfaNI	GCATC	3 cut(s)	3, 904, 1026
SfcI	CTRYAG	1 cut(s)	1123
Sfr303I	CCGCGG	1 cut(s)	399
SfuI	TTCGAA	1 cut(s)	937
SgrBI	CCGCGG	1 cut(s)	399
SmiMI	CAYNNNNRTG	3 cut(s)	11, 294, 792
SphI	GCATGC	1 cut(s)	791
SseBI	AGGCCT	1 cut(s)	128
SsiI	CCGC	4 cut(s)	20, 396, 398, 1148
SspI	AATATT	1 cut(s)	972
SspMI	CTAG	2 cut(s)	17, 281
StuI	AGGCCT	1 cut(s)	128
StyD4I	CCNGG	1 cut(s)	782
StyI	CCWWGG	2 cut(s)	702, 723
TaaI	ACNGT	9 cut(s)	171, 419, 617, 661, 731, 775, 870, 1127, 1178
TaiI	ACGT	1 cut(s)	1138
TaqI	TCGA	5 cut(s)	135, 139, 532, 937, 1138
TatI	WGTACW	3 cut(s)	234, 349, 1196
TfiI	GAWTC	2 cut(s)	595, 797
Tru1I	TTAA	2 cut(s)	209, 992
Tru9I	TTAA	2 cut(s)	209, 992
TscAI	CASTG	1 cut(s)	664
TspDTI	ATGAA	8 cut(s)	74, 188, 278, 303, 618, 626, 661, 1201
TspRI	CASTG	1 cut(s)	664
Van91I	CCANNNNNTGG	2 cut(s)	708, 893
XapI	RAATTY	5 cut(s)	80, 749, 778, 933, 1250
XceI	RCATGY	1 cut(s)	791
XcmI	CCANNNNNNNNNTGG	1 cut(s)	500
XmiI	GTMKAC	2 cut(s)	872, 1138
XmnI	GAANNNNTTC	1 cut(s)	933
XspI	CTAG	2 cut(s)	17, 281
ZrmI	AGTACT	2 cut(s)	351, 1198

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