Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002671

Physical Location & Seq

Genomic Coordinates Reverse (-)

17451956 .. 17460031

Gene Structure 8076 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG083500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1404 bp

ATGTCAACTGTAGAAATGGAGGTCTTTTCAAACATCCAACTCATCATTATGACCATTTTGATGCTAGCGGGTGGAGAGGTTTTCACTTCCTTGCTTGGACTTCAAATTGCAAGGTCCAAGATTGCCAAATTTCATGATAACGAAGTTGATGTAGAACTCAGCTCTTCTAATAAGGCCTCCTTTGATCGAATAGAATTTCATGATAACAAAGTTGATGTAGAACTCAACTCTTCTAATAAGGCCTCCTTCGATCGAATAGAGTTAGGTTTGGTTACCCTTTCACAGTTAGAGAGTCAGCAGAAACCTAACATTCAAAATGGTTTAAAAACCTTTGACAATGATATCAAGTACAAGTCTATTAGGTGTCTGGCCTATGTGGTTTTAGGTTATCTTTTAGTGGTTCATATAGGTGGTTCCAGTTTAGTTTCATTGTACATTATCCTTGTTCCAAGTGCAAGACAAGTACTCAAAAACAAAGGCATTGAAATCCAAACCTTTGCTGTTTTCACCACGGTTTCCACCTTTGCAAACTGTGGTTTTGTCCCCACAAACGAGAATATGATCATTTTCAAGAACAATTCTGGGCTTTTACTTCTTCTAATTCCCCAAATCCTTGTTGGAAACACCTTATATCCTGTGATCCTTCGATTTGTGATTTGGGGTTTGGCAAAAATCACAAGGAGGGTGGAGTTCAGTTACATATTGAAGAATCATAATGAATTGGGTTACAGTCATATGCTATCTGGTCTTCATTCTCTTCTTCTACTTGCCACTGTCTTGGGGTTCATAGCAGTTCAGCTGATACTATTTTGTGCCATGGAGTGGAAATCTGAAGCCATGGATGGTCTGAGTGGCTATCAGAAATTTGTGGCGTCATTGTTTCAAACGGTGAATTCCAGGCATGCTGGTGAATCGGTTGTTGATCTCTCCATCATCTCTCCTGCAATCTTGGTGCTATTTGTCTTGATGATGTATCTTCCACCGTATACTACATTTGATCCAGCAATTGGTGGTTGTCAAGAAGGTGATGCTTCAGGAAAAGAAGAAATTCGAAATCCGAGAAAGACGTTGCTGGAGTCTCTAATATTCTCACAGCTGACTTATTTAACCATCTTTGTCATACTCGTTTGCATCACAGAGAGACAAAAGATGATGGAAGACCCCCTCAACTTCAATGTGTTGAATGTTGTCGTAGAAGTAATAAGTGCATATGGAAATGTTGGGTTTACAACTGGCTACAGTTGTAAACGTCGACTGAAGGCGGAGGGTGATTGTATAGACAAATGGTACGGTTTGGTTGGAAGATTTAGTACTGAAGGAAAGTTCATCCTCATTCTTGTCATGTTCTTTGGAAGGCTGAAGAAATTCAGTATGAAGCAGGGTAAAGCATGGAAGCTATCTTAG

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

467

Amino Acids

52.24

Weight (kDa)

8.51

Isoelectric Point (pI)

39.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TrkH	PF02386	110 - 326	5.1e-26	Cation transport protein
TrkH	PF02386	355 - 457	1.1e-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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	822, 1007
AccI	GTMKAC	2 cut(s)	986, 1252
AciI	CCGC	2 cut(s)	68, 1262
AclWI	GGATC	2 cut(s)	634, 992
AcsI	RAATTY	6 cut(s)	128, 194, 863, 892, 1047, 1364
AcuI	CTGAAG	5 cut(s)	852, 1017, 1277, 1335, 1379
AcyI	GRCGYC	1 cut(s)	872
AfaI	GTAC	5 cut(s)	350, 434, 465, 1289, 1312
AfiI	CCNNNNNNNGG	2 cut(s)	822, 1007
AgsI	TTSAA	9 cut(s)	30, 104, 314, 485, 571, 706, 884, 1174, 1183
AjnI	CCWGG	1 cut(s)	896
AluBI	AGCT	4 cut(s)	162, 799, 1096, 1396
AluI	AGCT	4 cut(s)	162, 799, 1096, 1396
Alw26I	GTCTC	2 cut(s)	1083, 1135
AlwI	GGATC	2 cut(s)	634, 992
AoxI	GGCC	3 cut(s)	174, 240, 369
ApoI	RAATTY	6 cut(s)	128, 194, 863, 892, 1047, 1364
Asp700I	GAANNNNTTC	2 cut(s)	1047, 1364
AspS9I	GGNCC	1 cut(s)	114
AsuHPI	GGTGA	5 cut(s)	499, 901, 920, 1037, 1280
AsuII	TTCGAA	1 cut(s)	1051
AsuNHI	GCTAGC	1 cut(s)	64
AvaII	GGWCC	1 cut(s)	114
BarI	GAAGNNNNNNTAC	2 cut(s)	1294, 1326
BbsI	GAAGAC	2 cut(s)	740, 1164
BccI	CCATC	4 cut(s)	836, 938, 1118, 1147
BciT130I	CCWGG	1 cut(s)	898
BclI	TGATCA	1 cut(s)	561
BcoDI	GTCTC	2 cut(s)	1083, 1135
BfaI	CTAG	1 cut(s)	65
BfmI	CTRYAG	2 cut(s)	9, 1237
BmcAI	AGTACT	2 cut(s)	465, 1312
Bme1390I	CCNGG	1 cut(s)	898
Bme18I	GGWCC	1 cut(s)	114
BmgT120I	GGNCC	1 cut(s)	114
BmiI	GGNNCC	1 cut(s)	415
BmrFI	CCNGG	1 cut(s)	898
BmsI	GCATC	3 cut(s)	51, 1018, 1140
BmtI	GCTAGC	1 cut(s)	68
BpiI	GAAGAC	2 cut(s)	740, 1164
BpmI	CTGGAG	1 cut(s)	1094
Bpu14I	TTCGAA	1 cut(s)	1051
BsaHI	GRCGYC	1 cut(s)	872
BsaJI	CCNNGG	3 cut(s)	510, 816, 837
Bsc4I	CCNNNNNNNGG	2 cut(s)	822, 1007
Bse1I	ACTGG	2 cut(s)	417, 1237
BseBI	CCWGG	1 cut(s)	898
BseDI	CCNNGG	3 cut(s)	510, 816, 837
BseGI	GGATG	3 cut(s)	33, 847, 1326
BseLI	CCNNNNNNNGG	2 cut(s)	822, 1007
BseMII	CTCAG	2 cut(s)	172, 839
BseNI	ACTGG	2 cut(s)	417, 1237
Bsh1285I	CGRYCG	1 cut(s)	253
BshFI	GGCC	3 cut(s)	176, 242, 371
BsiEI	CGRYCG	1 cut(s)	253
BslFI	GGGAC	1 cut(s)	527
BslI	CCNNNNNNNGG	2 cut(s)	822, 1007
BsmAI	GTCTC	2 cut(s)	1083, 1135
BsmFI	GGGAC	1 cut(s)	527
BsnI	GGCC	3 cut(s)	176, 242, 371
Bsp119I	TTCGAA	1 cut(s)	1051
Bsp1407I	TGTACA	1 cut(s)	432
Bsp143I	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
Bsp19I	CCATGG	2 cut(s)	816, 837
BspACI	CCGC	2 cut(s)	68, 1262
BspANI	GGCC	3 cut(s)	176, 242, 371
BspCNI	CTCAG	2 cut(s)	171, 840
BspHI	TCATGA	2 cut(s)	133, 199
BspLI	GGNNCC	1 cut(s)	415
BspOI	GCTAGC	1 cut(s)	68
BspPI	GGATC	2 cut(s)	634, 992
BspQI	GCTCTTC	1 cut(s)	169
BspT104I	TTCGAA	1 cut(s)	1051
BsrGI	TGTACA	1 cut(s)	432
BsrI	ACTGG	2 cut(s)	417, 1237
BssECI	CCNNGG	3 cut(s)	510, 816, 837
BssMI	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
BssNAI	GTATAC	1 cut(s)	987
BssNI	GRCGYC	1 cut(s)	872
BssT1I	CCWWGG	2 cut(s)	816, 837
Bst1107I	GTATAC	1 cut(s)	987
Bst2UI	CCWGG	1 cut(s)	898
Bst6I	CTCTTC	3 cut(s)	169, 235, 762
BstACI	GRCGYC	1 cut(s)	872
BstAUI	TGTACA	1 cut(s)	432
BstBI	TTCGAA	1 cut(s)	1051
BstC8I	GCNNGC	2 cut(s)	66, 903
BstDEI	CTNAG	3 cut(s)	158, 848, 1401
BstDSI	CCRYGG	3 cut(s)	510, 816, 837
BstEII	GGTNACC	1 cut(s)	271
BstF5I	GGATG	3 cut(s)	33, 847, 1326
BstKTI	GATC	6 cut(s)	187, 253, 564, 642, 925, 1000
BstMAI	GTCTC	2 cut(s)	1083, 1135
BstMBI	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
BstMCI	CGRYCG	1 cut(s)	253
BstNI	CCWGG	1 cut(s)	898
BstNSI	RCATGY	1 cut(s)	905
BstPI	GGTNACC	1 cut(s)	271
BstSCI	CCNGG	1 cut(s)	896
BstSFI	CTRYAG	2 cut(s)	9, 1237
BstV2I	GAAGAC	2 cut(s)	740, 1164
BstXI	CCANNNNNNTGG	1 cut(s)	778
BstZ17I	GTATAC	1 cut(s)	987
BsuRI	GGCC	3 cut(s)	176, 242, 371
BtgI	CCRYGG	3 cut(s)	510, 816, 837
BtsCI	GGATG	3 cut(s)	33, 847, 1326
BtsIMutI	CAGTG	1 cut(s)	771
Cac8I	GCNNGC	2 cut(s)	66, 903
CciI	TCATGA	2 cut(s)	133, 199
Cfr13I	GGNCC	1 cut(s)	114
CseI	GACGC	1 cut(s)	861
Csp6I	GTAC	5 cut(s)	349, 433, 464, 1288, 1311
CspCI	CAANNNNNGTGG	2 cut(s)	666, 701
CviAII	CATG	7 cut(s)	134, 200, 817, 838, 902, 1342, 1389
CviQI	GTAC	5 cut(s)	349, 433, 464, 1288, 1311
DdeI	CTNAG	3 cut(s)	158, 848, 1401
DpnI	GATC	6 cut(s)	186, 252, 563, 641, 924, 999
DpnII	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
DraI	TTTAAA	1 cut(s)	324
Eam1104I	CTCTTC	3 cut(s)	169, 235, 762
EarI	CTCTTC	3 cut(s)	169, 235, 762
EciI	GGCGGA	1 cut(s)	1277
Eco130I	CCWWGG	2 cut(s)	816, 837
Eco147I	AGGCCT	2 cut(s)	176, 242
Eco32I	GATATC	1 cut(s)	343
Eco47I	GGWCC	1 cut(s)	114
Eco57I	CTGAAG	5 cut(s)	852, 1017, 1277, 1335, 1379
Eco91I	GGTNACC	1 cut(s)	271
EcoO65I	GGTNACC	1 cut(s)	271
EcoRI	GAATTC	1 cut(s)	892
EcoRII	CCWGG	1 cut(s)	896
EcoRV	GATATC	1 cut(s)	343
EcoT14I	CCWWGG	2 cut(s)	816, 837
ErhI	CCWWGG	2 cut(s)	816, 837
FaeI	CATG	7 cut(s)	137, 203, 820, 841, 905, 1345, 1392
FalI	AAGNNNNNCTT	4 cut(s)	164, 196, 230, 262
FaqI	GGGAC	1 cut(s)	527
FatI	CATG	7 cut(s)	133, 199, 816, 837, 901, 1341, 1388
FauI	CCCGC	1 cut(s)	61
FauNDI	CATATG	2 cut(s)	735, 1210
FbaI	TGATCA	1 cut(s)	561
FblI	GTMKAC	2 cut(s)	986, 1252
FokI	GGATG	3 cut(s)	20, 854, 1313
FspBI	CTAG	1 cut(s)	65
GsuI	CTGGAG	1 cut(s)	1094
HaeIII	GGCC	3 cut(s)	176, 242, 371
HgaI	GACGC	1 cut(s)	861
Hin1I	GRCGYC	1 cut(s)	872
Hin1II	CATG	7 cut(s)	137, 203, 820, 841, 905, 1345, 1392
HincII	GTYRAC	2 cut(s)	6, 1253
HindII	GTYRAC	2 cut(s)	6, 1253
HinfI	GANTC	4 cut(s)	292, 709, 911, 1076
HphI	GGTGA	5 cut(s)	499, 901, 920, 1037, 1280
Hpy166II	GTNNAC	5 cut(s)	6, 987, 1227, 1247, 1253
Hpy188I	TCNGA	4 cut(s)	832, 849, 861, 1059
Hpy188III	TCNNGA	6 cut(s)	134, 200, 571, 964, 1019, 1035
Hpy8I	GTNNAC	5 cut(s)	6, 987, 1227, 1247, 1253
Hpy99I	CGWCG	1 cut(s)	1254
HpyAV	CCTTC	6 cut(s)	256, 653, 1016, 1252, 1310, 1347
HpyCH4IV	ACGT	2 cut(s)	1067, 1249
HpyCH4V	TGCA	6 cut(s)	110, 455, 527, 944, 1131, 1208
HpyF3I	CTNAG	3 cut(s)	158, 848, 1401
HpySE526I	ACGT	2 cut(s)	1067, 1249
Hsp92I	GRCGYC	1 cut(s)	872
Hsp92II	CATG	7 cut(s)	137, 203, 820, 841, 905, 1345, 1392
Ksp22I	TGATCA	1 cut(s)	561
Kzo9I	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
LguI	GCTCTTC	1 cut(s)	169
LweI	GCATC	3 cut(s)	51, 1018, 1140
MaeI	CTAG	1 cut(s)	65
MaeII	ACGT	2 cut(s)	1067, 1249
MaeIII	GTNAC	3 cut(s)	271, 695, 725
MalI	GATC	6 cut(s)	186, 252, 563, 641, 924, 999
MboI	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
MfeI	CAATTG	1 cut(s)	1005
MlyI	GAGTC	2 cut(s)	301, 1085
MmeI	TCCRAC	3 cut(s)	61, 598, 1279
MnlI	CCTC	8 cut(s)	13, 70, 187, 253, 675, 1175, 1258, 1340
MroXI	GAANNNNTTC	2 cut(s)	1047, 1364
MseI	TTAA	2 cut(s)	323, 1106
MslI	CAYNNNNRTG	4 cut(s)	47, 59, 408, 906
MspA1I	CMGCKG	2 cut(s)	799, 1096
MspR9I	CCNGG	1 cut(s)	898
MunI	CAATTG	1 cut(s)	1005
MvaI	CCWGG	1 cut(s)	898
NcoI	CCATGG	2 cut(s)	816, 837
NdeI	CATATG	2 cut(s)	735, 1210
NdeII	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
NheI	GCTAGC	1 cut(s)	64
NlaIII	CATG	7 cut(s)	137, 203, 820, 841, 905, 1345, 1392
NlaIV	GGNNCC	1 cut(s)	415
NspI	RCATGY	1 cut(s)	905
NspV	TTCGAA	1 cut(s)	1051
PaeI	GCATGC	1 cut(s)	905
PagI	TCATGA	2 cut(s)	133, 199
PceI	AGGCCT	2 cut(s)	176, 242
PciSI	GCTCTTC	1 cut(s)	169
PdmI	GAANNNNTTC	2 cut(s)	1047, 1364
PfeI	GAWTC	2 cut(s)	709, 911
PflMI	CCANNNNNTGG	2 cut(s)	822, 1007
Ple19I	CGATCG	1 cut(s)	253
PleI	GAGTC	2 cut(s)	300, 1084
PpsI	GAGTC	2 cut(s)	300, 1084
Psp6I	CCWGG	1 cut(s)	896
PspEI	GGTNACC	1 cut(s)	271
PspGI	CCWGG	1 cut(s)	896
PspN4I	GGNNCC	1 cut(s)	415
PspPI	GGNCC	1 cut(s)	114
PvuI	CGATCG	1 cut(s)	253
PvuII	CAGCTG	2 cut(s)	799, 1096
RsaI	GTAC	5 cut(s)	350, 434, 465, 1289, 1312
RsaNI	GTAC	5 cut(s)	349, 433, 464, 1288, 1311
RseI	CAYNNNNRTG	4 cut(s)	47, 59, 408, 906
SalI	GTCGAC	1 cut(s)	1251
SapI	GCTCTTC	1 cut(s)	169
SaqAI	TTAA	2 cut(s)	323, 1106
Sau3AI	GATC	6 cut(s)	184, 250, 561, 639, 922, 997
Sau96I	GGNCC	1 cut(s)	114
ScaI	AGTACT	2 cut(s)	465, 1312
SchI	GAGTC	2 cut(s)	301, 1085
ScrFI	CCNGG	1 cut(s)	898
SfaNI	GCATC	3 cut(s)	51, 1018, 1140
SfcI	CTRYAG	2 cut(s)	9, 1237
SfuI	TTCGAA	1 cut(s)	1051
SinI	GGWCC	1 cut(s)	114
SmiMI	CAYNNNNRTG	4 cut(s)	47, 59, 408, 906
SphI	GCATGC	1 cut(s)	905
SseBI	AGGCCT	2 cut(s)	176, 242
SsiI	CCGC	2 cut(s)	68, 1262
SspI	AATATT	1 cut(s)	1086
SspMI	CTAG	1 cut(s)	65
StuI	AGGCCT	2 cut(s)	176, 242
StyD4I	CCNGG	1 cut(s)	896
StyI	CCWWGG	2 cut(s)	816, 837
TaiI	ACGT	2 cut(s)	1070, 1252
TaqI	TCGA	6 cut(s)	187, 249, 253, 646, 1051, 1252
TatI	WGTACW	4 cut(s)	348, 432, 463, 1310
TfiI	GAWTC	2 cut(s)	709, 911
Tru1I	TTAA	2 cut(s)	323, 1106
Tru9I	TTAA	2 cut(s)	323, 1106
TscAI	CASTG	1 cut(s)	778
TspDTI	ATGAA	9 cut(s)	122, 188, 392, 417, 732, 740, 775, 1315, 1388
TspRI	CASTG	1 cut(s)	778
Van91I	CCANNNNNTGG	2 cut(s)	822, 1007
VpaK11BI	GGWCC	1 cut(s)	114
XapI	RAATTY	6 cut(s)	128, 194, 863, 892, 1047, 1364
XceI	RCATGY	1 cut(s)	905
XcmI	CCANNNNNNNNNTGG	1 cut(s)	614
XmiI	GTMKAC	2 cut(s)	986, 1252
XmnI	GAANNNNTTC	2 cut(s)	1047, 1364
XspI	CTAG	1 cut(s)	65
ZrmI	AGTACT	2 cut(s)	465, 1312

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