Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002671

Physical Location & Seq

Genomic Coordinates Forward (+)

62755486 .. 62763499

Gene Structure 8014 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG398100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1611 bp

ATGGACAACTTTTCTGTTCCTTGTTGGAAATTGAAGGCCATTTCATGCATTCACAAAATCCCTTGCCTCCGCCAATTTTCTTGGAGAGTTCTGAATCGTTCACCTTTTCGTTTCCTACTCTTCCTTTACAATCCTTTCATTATCGAACTTATTTACTTTTTAGTGGTCTCTCTCCTGGGTTATTTGGCTTTGAGGGTCACAAAACCAGGAACTAGAACTTCCTTTAAGCCCAAGGACTTTGATTTGTTCTTCACATCCGTCTCTTCCACTACAGTATCAAGCATGTCAACTGTAGAAATGGAGGTTTTTTCAAACACCCAACTCATCATTATGACCATTTTGATGCTGGTGGGTGGAGAGGTTTTCACTTCCATGCTTGGACTTCAAATTGCAAGGTCCAAGATTCCCAAATGTCATGATAATTACAAAGTTGATGTAGAACTCAACTCTTCTAACGAGACCTCCATCGATCGAATTGAGTTAGGGTTGGTCACCCTTTCACAATTAGAGAGTGAGAAGAAAACTTACATTCATAATGGTGTAAAAACCTTTGACGAGGATAGTACTACTATCAAGAACAAGTCTATTAGGTGTCTGGCCTATGTAGTTTTAGTTTATCTTCTAGTGGTTCATATAGGTGGTTCCAGTTTAATTTCATTGTACATAATCCTTGTTCCAAGTGCAAGACAAGTACTCAAAAACAAAGGCATTGAAATCCAAACCTTTGCTGTTTTCACCACAGTTTCCACCTTCTCAAACTGTGGTTTCGTCCCCACAAACGAGAACATGATCGTTTTCAAGAACAATTCTGGGCTTCTACTTCTTCTAATTCCTCTAGTCCTCCTCGGAAACACTTTATATCCAGTGATCCTTCAATTTCTGATATGGGTTTTGGAGAAAATAACCAAAAGGGTGGAGTTCAGTTACATGTTGAAGAATTATAATGAATTGGGTTACAGTCATATGCTATCTGGTCTTCATTCTGTTCTTCTACTTGTCACTGTCTTGGGGTTCATAGCAGTTCAGCTGATACTATTTTGTGCCATGGAGTGGAAATCCGAAGCCATGTATGGTCTTAGTGGCTATCAGAAATTTGTGGCGTCATTATTTCAAACTGTAAATTCCAGGCATACTGGTGAGTCGGTTGTCGATCTCTCCATCATCTCTCCCGCAATCTTGGTACTGTTTGTCTCGATGATGTATCTTCCACCGTATACTACATTTGGTCCAGCAATTAATGGTGGTTGTCAACAAGGTGATACTTCAGAAAAAGAAGATATTCGAAATCCGAGAAAGACTTTGGTGGAGTCTCTGATGTTCTCACAGCTCTCTTATTTAACCATATTTGTCATACTCATTTGCATCACTGAGAGACACAAGATGAAGGAAGACCCCCTCAACTTCAATGTGTTGAATGTTGTAGTAGAAGTGATAAGTGCATATGGAAATGTTGGGTTTTCGACTGGCTACAGTTGTAAACGTCGACTGAATTCTGAGGGTGATTGTAAAGACGCAAGCTACGGACTGGTTGGAAGGTTTAGTACAGAAGGAAAGTTCATCCTCATTCTTGTCATGTTCTTTGGGAGGCTAAAGAAATTCAGTATAAAGTAG

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

536

Amino Acids

60.45

Weight (kDa)

8.99

Isoelectric Point (pI)

36.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TrkH	PF02386	191 - 534	3.2e-33	Cation transport protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	942
AccB7I	CCANNNNNTGG	1 cut(s)	1050
AccI	GTMKAC	2 cut(s)	1214, 1483
AciI	CCGC	2 cut(s)	70, 1170
AclWI	GGATC	1 cut(s)	862
AcsI	RAATTY	4 cut(s)	1091, 1120, 1489, 1595
AcuI	CTGAAG	1 cut(s)	1248
AcyI	GRCGYC	1 cut(s)	1100
AfaI	GTAC	5 cut(s)	565, 662, 693, 1182, 1543
AfiI	CCNNNNNNNGG	1 cut(s)	1050
AflIII	ACRYGT	1 cut(s)	927
AjnI	CCWGG	3 cut(s)	174, 205, 1124
AluBI	AGCT	3 cut(s)	1027, 1327, 1518
AluI	AGCT	3 cut(s)	1027, 1327, 1518
Alw26I	GTCTC	6 cut(s)	172, 265, 452, 1195, 1314, 1366
AlwI	GGATC	1 cut(s)	862
AoxI	GGCC	2 cut(s)	36, 597
ApoI	RAATTY	4 cut(s)	1091, 1120, 1489, 1595
AseI	ATTAAT	1 cut(s)	1236
Asp700I	GAANNNNTTC	1 cut(s)	1278
AspS9I	GGNCC	2 cut(s)	396, 1226
AsuHPI	GGTGA	6 cut(s)	93, 484, 727, 1148, 1268, 1511
AsuII	TTCGAA	1 cut(s)	1282
AvaII	GGWCC	2 cut(s)	396, 1226
BaeI	ACNNNNGTAYC	2 cut(s)	258, 291
BarI	GAAGNNNNNNTAC	4 cut(s)	509, 541, 1525, 1557
BbsI	GAAGAC	2 cut(s)	968, 1395
BccI	CCATC	2 cut(s)	473, 1166
BciT130I	CCWGG	3 cut(s)	176, 207, 1126
BcoDI	GTCTC	6 cut(s)	172, 265, 452, 1195, 1314, 1366
BfaI	CTAG	3 cut(s)	213, 623, 836
BfmI	CTRYAG	3 cut(s)	270, 291, 1468
BmcAI	AGTACT	2 cut(s)	565, 693
Bme1390I	CCNGG	3 cut(s)	176, 207, 1126
Bme18I	GGWCC	2 cut(s)	396, 1226
BmgT120I	GGNCC	2 cut(s)	396, 1226
BmiI	GGNNCC	1 cut(s)	643
BmrFI	CCNGG	3 cut(s)	176, 207, 1126
BmsI	GCATC	2 cut(s)	333, 1371
BpiI	GAAGAC	2 cut(s)	968, 1395
Bpu14I	TTCGAA	1 cut(s)	1282
Bsa29I	ATCGAT	1 cut(s)	468
BsaHI	GRCGYC	1 cut(s)	1100
BsaI	GGTCTC	2 cut(s)	172, 452
BsaJI	CCNNGG	4 cut(s)	175, 231, 844, 1044
BsaXI	ACNNNNNCTCC	2 cut(s)	446, 476
Bsc4I	CCNNNNNNNGG	1 cut(s)	1050
Bse1I	ACTGG	5 cut(s)	645, 863, 1138, 1468, 1530
BseBI	CCWGG	3 cut(s)	176, 207, 1126
BseCI	ATCGAT	1 cut(s)	468
BseDI	CCNNGG	4 cut(s)	175, 231, 844, 1044
BseGI	GGATG	2 cut(s)	254, 1557
BseLI	CCNNNNNNNGG	1 cut(s)	1050
BseMII	CTCAG	2 cut(s)	1359, 1485
BseNI	ACTGG	5 cut(s)	645, 863, 1138, 1468, 1530
BseRI	GAGGAG	1 cut(s)	833
Bsh1285I	CGRYCG	1 cut(s)	472
BshFI	GGCC	2 cut(s)	38, 599
BshVI	ATCGAT	1 cut(s)	468
BsiEI	CGRYCG	1 cut(s)	472
BslFI	GGGAC	1 cut(s)	755
BslI	CCNNNNNNNGG	1 cut(s)	1050
BsmAI	GTCTC	6 cut(s)	172, 265, 452, 1195, 1314, 1366
BsmBI	CGTCTC	1 cut(s)	265
BsmFI	GGGAC	1 cut(s)	755
BsmI	GAATGC	1 cut(s)	48
BsnI	GGCC	2 cut(s)	38, 599
Bso31I	GGTCTC	2 cut(s)	172, 452
Bsp119I	TTCGAA	1 cut(s)	1282
Bsp1407I	TGTACA	1 cut(s)	660
Bsp143I	GATC	4 cut(s)	469, 789, 867, 1150
Bsp19I	CCATGG	1 cut(s)	1044
BspACI	CCGC	2 cut(s)	70, 1170
BspANI	GGCC	2 cut(s)	38, 599
BspCNI	CTCAG	2 cut(s)	1360, 1486
BspDI	ATCGAT	1 cut(s)	468
BspHI	TCATGA	1 cut(s)	415
BspLI	GGNNCC	1 cut(s)	643
BspPI	GGATC	1 cut(s)	862
BspT104I	TTCGAA	1 cut(s)	1282
BspTNI	GGTCTC	2 cut(s)	172, 452
BsrGI	TGTACA	1 cut(s)	660
BsrI	ACTGG	5 cut(s)	645, 863, 1138, 1468, 1530
BssECI	CCNNGG	4 cut(s)	175, 231, 844, 1044
BssMI	GATC	4 cut(s)	469, 789, 867, 1150
BssNAI	GTATAC	1 cut(s)	1215
BssNI	GRCGYC	1 cut(s)	1100
BssT1I	CCWWGG	2 cut(s)	231, 1044
Bst1107I	GTATAC	1 cut(s)	1215
Bst2UI	CCWGG	3 cut(s)	176, 207, 1126
Bst6I	CTCTTC	3 cut(s)	125, 268, 454
BstACI	GRCGYC	1 cut(s)	1100
BstAUI	TGTACA	1 cut(s)	660
BstBI	TTCGAA	1 cut(s)	1282
BstC8I	GCNNGC	1 cut(s)	1516
BstDEI	CTNAG	3 cut(s)	1076, 1368, 1494
BstDSI	CCRYGG	1 cut(s)	1044
BstEII	GGTNACC	1 cut(s)	490
BstF5I	GGATG	2 cut(s)	254, 1557
BstKTI	GATC	4 cut(s)	472, 792, 870, 1153
BstMAI	GTCTC	6 cut(s)	172, 265, 452, 1195, 1314, 1366
BstMBI	GATC	4 cut(s)	469, 789, 867, 1150
BstMCI	CGRYCG	1 cut(s)	472
BstNI	CCWGG	3 cut(s)	176, 207, 1126
BstNSI	RCATGY	2 cut(s)	286, 931
BstPI	GGTNACC	1 cut(s)	490
BstSCI	CCNGG	3 cut(s)	174, 205, 1124
BstSFI	CTRYAG	3 cut(s)	270, 291, 1468
BstV2I	GAAGAC	2 cut(s)	968, 1395
BstXI	CCANNNNNNTGG	1 cut(s)	913
BstZ17I	GTATAC	1 cut(s)	1215
Bsu15I	ATCGAT	1 cut(s)	468
BsuRI	GGCC	2 cut(s)	38, 599
BsuTUI	ATCGAT	1 cut(s)	468
BtgI	CCRYGG	1 cut(s)	1044
BtsCI	GGATG	2 cut(s)	254, 1557
BtsIMutI	CAGTG	3 cut(s)	870, 999, 1365
Cac8I	GCNNGC	1 cut(s)	1516
CciI	TCATGA	1 cut(s)	415
Cfr13I	GGNCC	2 cut(s)	396, 1226
ClaI	ATCGAT	1 cut(s)	468
CseI	GACGC	2 cut(s)	1089, 1520
Csp6I	GTAC	5 cut(s)	564, 661, 692, 1181, 1542
CviAII	CATG	9 cut(s)	45, 283, 373, 416, 787, 928, 1045, 1066, 1573
CviQI	GTAC	5 cut(s)	564, 661, 692, 1181, 1542
DdeI	CTNAG	3 cut(s)	1076, 1368, 1494
DpnI	GATC	4 cut(s)	471, 791, 869, 1152
DpnII	GATC	4 cut(s)	469, 789, 867, 1150
Eam1104I	CTCTTC	3 cut(s)	125, 268, 454
EarI	CTCTTC	3 cut(s)	125, 268, 454
EciI	GGCGGA	1 cut(s)	59
Eco130I	CCWWGG	2 cut(s)	231, 1044
Eco31I	GGTCTC	2 cut(s)	172, 452
Eco47I	GGWCC	2 cut(s)	396, 1226
Eco57I	CTGAAG	1 cut(s)	1248
Eco91I	GGTNACC	1 cut(s)	490
EcoO65I	GGTNACC	1 cut(s)	490
EcoRI	GAATTC	1 cut(s)	1489
EcoRII	CCWGG	3 cut(s)	174, 205, 1124
EcoT14I	CCWWGG	2 cut(s)	231, 1044
EcoT22I	ATGCAT	1 cut(s)	50
ErhI	CCWWGG	2 cut(s)	231, 1044
Esp3I	CGTCTC	1 cut(s)	265
FaeI	CATG	9 cut(s)	48, 286, 376, 419, 790, 931, 1048, 1069, 1576
FaqI	GGGAC	1 cut(s)	755
FatI	CATG	9 cut(s)	44, 282, 372, 415, 786, 927, 1044, 1065, 1572
FauI	CCCGC	1 cut(s)	1177
FauNDI	CATATG	2 cut(s)	963, 1441
FblI	GTMKAC	2 cut(s)	1214, 1483
FokI	GGATG	2 cut(s)	241, 1544
FspBI	CTAG	3 cut(s)	213, 623, 836
HaeIII	GGCC	2 cut(s)	38, 599
HgaI	GACGC	2 cut(s)	1089, 1520
Hin1I	GRCGYC	1 cut(s)	1100
Hin1II	CATG	9 cut(s)	48, 286, 376, 419, 790, 931, 1048, 1069, 1576
HincII	GTYRAC	3 cut(s)	288, 1250, 1484
HindII	GTYRAC	3 cut(s)	288, 1250, 1484
HinfI	GANTC	4 cut(s)	94, 403, 1139, 1307
HphI	GGTGA	6 cut(s)	93, 484, 727, 1148, 1268, 1511
Hpy166II	GTNNAC	6 cut(s)	101, 288, 1215, 1250, 1478, 1484
Hpy188I	TCNGA	9 cut(s)	93, 848, 882, 1060, 1089, 1267, 1290, 1314, 1495
Hpy188III	TCNNGA	4 cut(s)	416, 574, 799, 1192
Hpy8I	GTNNAC	6 cut(s)	101, 288, 1215, 1250, 1478, 1484
Hpy99I	CGWCG	1 cut(s)	1485
HpyAV	CCTTC	6 cut(s)	28, 760, 881, 1378, 1527, 1541
HpyCH4IV	ACGT	1 cut(s)	1480
HpyCH4V	TGCA	5 cut(s)	48, 392, 683, 1362, 1439
HpyF3I	CTNAG	3 cut(s)	1076, 1368, 1494
HpySE526I	ACGT	1 cut(s)	1480
Hsp92I	GRCGYC	1 cut(s)	1100
Hsp92II	CATG	9 cut(s)	48, 286, 376, 419, 790, 931, 1048, 1069, 1576
Kzo9I	GATC	4 cut(s)	469, 789, 867, 1150
LweI	GCATC	2 cut(s)	333, 1371
MaeI	CTAG	3 cut(s)	213, 623, 836
MaeII	ACGT	1 cut(s)	1480
MaeIII	GTNAC	5 cut(s)	196, 490, 923, 953, 997
MalI	GATC	4 cut(s)	471, 791, 869, 1152
MboI	GATC	4 cut(s)	469, 789, 867, 1150
MlyI	GAGTC	2 cut(s)	1148, 1316
MmeI	TCCRAC	2 cut(s)	5, 1510
Mph1103I	ATGCAT	1 cut(s)	50
MroXI	GAANNNNTTC	1 cut(s)	1278
MseI	TTAA	4 cut(s)	225, 650, 1236, 1337
MslI	CAYNNNNRTG	6 cut(s)	329, 341, 371, 537, 636, 1134
MspA1I	CMGCKG	1 cut(s)	1027
MspR9I	CCNGG	3 cut(s)	176, 207, 1126
Mva1269I	GAATGC	1 cut(s)	48
MvaI	CCWGG	3 cut(s)	176, 207, 1126
NcoI	CCATGG	1 cut(s)	1044
NdeI	CATATG	2 cut(s)	963, 1441
NdeII	GATC	4 cut(s)	469, 789, 867, 1150
NlaIII	CATG	9 cut(s)	48, 286, 376, 419, 790, 931, 1048, 1069, 1576
NlaIV	GGNNCC	1 cut(s)	643
NmuCI	GTSAC	3 cut(s)	196, 490, 997
NsiI	ATGCAT	1 cut(s)	50
NspI	RCATGY	2 cut(s)	286, 931
NspV	TTCGAA	1 cut(s)	1282
PagI	TCATGA	1 cut(s)	415
PciI	ACATGT	1 cut(s)	927
PctI	GAATGC	1 cut(s)	48
PdmI	GAANNNNTTC	1 cut(s)	1278
PfeI	GAWTC	2 cut(s)	94, 403
PflMI	CCANNNNNTGG	1 cut(s)	1050
Ple19I	CGATCG	1 cut(s)	472
PleI	GAGTC	2 cut(s)	1147, 1315
PpsI	GAGTC	2 cut(s)	1147, 1315
PscI	ACATGT	1 cut(s)	927
PshBI	ATTAAT	1 cut(s)	1236
PsiI	TTATAA	1 cut(s)	942
Psp6I	CCWGG	3 cut(s)	174, 205, 1124
PspEI	GGTNACC	1 cut(s)	490
PspGI	CCWGG	3 cut(s)	174, 205, 1124
PspN4I	GGNNCC	1 cut(s)	643
PspPI	GGNCC	2 cut(s)	396, 1226
PvuI	CGATCG	1 cut(s)	472
PvuII	CAGCTG	1 cut(s)	1027
RsaI	GTAC	5 cut(s)	565, 662, 693, 1182, 1543
RsaNI	GTAC	5 cut(s)	564, 661, 692, 1181, 1542
RseI	CAYNNNNRTG	6 cut(s)	329, 341, 371, 537, 636, 1134
SalI	GTCGAC	1 cut(s)	1482
SaqAI	TTAA	4 cut(s)	225, 650, 1236, 1337
Sau3AI	GATC	4 cut(s)	469, 789, 867, 1150
Sau96I	GGNCC	2 cut(s)	396, 1226
ScaI	AGTACT	2 cut(s)	565, 693
SchI	GAGTC	2 cut(s)	1148, 1316
ScrFI	CCNGG	3 cut(s)	176, 207, 1126
SfaNI	GCATC	2 cut(s)	333, 1371
SfcI	CTRYAG	3 cut(s)	270, 291, 1468
SfuI	TTCGAA	1 cut(s)	1282
SinI	GGWCC	2 cut(s)	396, 1226
SmiMI	CAYNNNNRTG	6 cut(s)	329, 341, 371, 537, 636, 1134
SsiI	CCGC	2 cut(s)	70, 1170
SspMI	CTAG	3 cut(s)	213, 623, 836
StyD4I	CCNGG	3 cut(s)	174, 205, 1124
StyI	CCWWGG	2 cut(s)	231, 1044
TaiI	ACGT	1 cut(s)	1483
TaqI	TCGA	8 cut(s)	144, 468, 472, 1149, 1193, 1282, 1460, 1483
TatI	WGTACW	4 cut(s)	563, 660, 691, 1541
TfiI	GAWTC	2 cut(s)	94, 403
Tru1I	TTAA	4 cut(s)	225, 650, 1236, 1337
Tru9I	TTAA	4 cut(s)	225, 650, 1236, 1337
TscAI	CASTG	3 cut(s)	870, 1006, 1372
TseFI	GTSAC	3 cut(s)	196, 490, 997
Tsp45I	GTSAC	3 cut(s)	196, 490, 997
TspGWI	ACGGA	2 cut(s)	247, 1536
TspRI	CASTG	3 cut(s)	870, 1006, 1372
Van91I	CCANNNNNTGG	1 cut(s)	1050
VpaK11BI	GGWCC	2 cut(s)	396, 1226
VspI	ATTAAT	1 cut(s)	1236
XapI	RAATTY	4 cut(s)	1091, 1120, 1489, 1595
XceI	RCATGY	2 cut(s)	286, 931
XcmI	CCANNNNNNNNNTGG	1 cut(s)	343
XmiI	GTMKAC	2 cut(s)	1214, 1483
XmnI	GAANNNNTTC	1 cut(s)	1278
XspI	CTAG	3 cut(s)	213, 623, 836
ZrmI	AGTACT	2 cut(s)	565, 693
Zsp2I	ATGCAT	1 cut(s)	50

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