Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0002671

Physical Location & Seq

Genomic Coordinates Reverse (-)

28760899 .. 28761768

Gene Structure 870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00023290.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGACCATTTTGATGCTGGTGGGTGGAGAGGTTTTCACTTCTATGCTTGGACTTCAAATTGCAAGGTCCAAGATTCCCAAATGTCATGATAACAAAGTTGATGTAGAACTCAACTCTTCTAACAAGATCTCCATCGATCGAATTGAGTTAGGGTTGGTCACCCTTTCACAATTAGAGAGTGAGAAGAAAACTTACATTCATAATGGTGTAAAAACCTTTGACAAGGATAGTACTACTATCAAGAACAAGTCTATTAGGTGTCTGGCCTATGTAGTTTTAGTTTATCTTCTAGTGGTTCATATAGGTGGTTCCAGTTTAATTTCATTGTACATAATCCTTGTTCCAAGTGCAAGACAAGTACTCAAAAACAAAGGCATTGAAATCCAAACCTTTGCTGTTTTCACCACAGTTTCCACCTTCTCAAACTGTGGTTTCGTCCCCACAAACGAGAACATGATCGTTTTCAAGAACAATTCTGGGCTTCTACTTCTTCTAATTCCTCTAGTCCTCTTCGGAAACACCTTATATCCGGTGATCCTTCAATTTCTGATATGGGTTTTGGAGAAAATAACCAAGAGGGTGGAGTTCAGTTACATGTTGAAGAATTATAATGAATTGGGTTACAGTCATATGCTATCTGGTCTTCATTCTGTTCTTCTACTTGTCACTGTCTTGGGGTTCATAGCAGTTCAGCTGATACTATTTTGTGCCATGGAGTGGAAATCCGAAGCCATGTATGGTCTTAGTGGCTATCAGAAATTTGTGGCGTCATTGTTTCAAACTGTAAATTCCAGGCATACTGGTGAGTCGGTTGTTGATCTCTCCATCATCTCTCCAGCAATATTGGTGCTGTTTGTCTCGATGATGTAA

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

289

Amino Acids

32.24

Weight (kDa)

8.93

Isoelectric Point (pI)

35.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TrkH	PF02386	80 - 289	8.6e-23	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)

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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)	609
AccB7I	CCANNNNNTGG	1 cut(s)	717
AclWI	GGATC	1 cut(s)	529
AcsI	RAATTY	2 cut(s)	758, 787
AcyI	GRCGYC	1 cut(s)	767
AfaI	GTAC	3 cut(s)	232, 329, 360
AfiI	CCNNNNNNNGG	1 cut(s)	717
AflIII	ACRYGT	1 cut(s)	594
AgsI	TTSAA	6 cut(s)	56, 380, 466, 542, 601, 779
AjnI	CCWGG	1 cut(s)	791
AluBI	AGCT	1 cut(s)	694
AluI	AGCT	1 cut(s)	694
Alw26I	GTCTC	1 cut(s)	862
AlwI	GGATC	1 cut(s)	529
AoxI	GGCC	1 cut(s)	264
ApoI	RAATTY	2 cut(s)	758, 787
AspS9I	GGNCC	1 cut(s)	66
AsuHPI	GGTGA	4 cut(s)	151, 394, 544, 815
AvaII	GGWCC	1 cut(s)	66
BarI	GAAGNNNNNNTAC	2 cut(s)	176, 208
BbsI	GAAGAC	1 cut(s)	635
BccI	CCATC	2 cut(s)	140, 833
BciT130I	CCWGG	1 cut(s)	793
BcoDI	GTCTC	1 cut(s)	862
BfaI	CTAG	2 cut(s)	290, 503
BglII	AGATCT	1 cut(s)	126
BmcAI	AGTACT	2 cut(s)	232, 360
Bme1390I	CCNGG	1 cut(s)	793
Bme18I	GGWCC	1 cut(s)	66
BmgT120I	GGNCC	1 cut(s)	66
BmiI	GGNNCC	1 cut(s)	310
BmrFI	CCNGG	1 cut(s)	793
BmsI	GCATC	1 cut(s)	3
BpiI	GAAGAC	1 cut(s)	635
BpmI	CTGGAG	1 cut(s)	819
Bsa29I	ATCGAT	1 cut(s)	135
BsaBI	GATNNNNATC	1 cut(s)	131
BsaHI	GRCGYC	1 cut(s)	767
BsaJI	CCNNGG	1 cut(s)	711
BsaWI	WCCGGW	1 cut(s)	529
BsaXI	ACNNNNNCTCC	2 cut(s)	113, 143
Bsc4I	CCNNNNNNNGG	1 cut(s)	717
Bse1I	ACTGG	2 cut(s)	312, 805
Bse8I	GATNNNNATC	1 cut(s)	131
BseBI	CCWGG	1 cut(s)	793
BseCI	ATCGAT	1 cut(s)	135
BseDI	CCNNGG	1 cut(s)	711
BseJI	GATNNNNATC	1 cut(s)	131
BseLI	CCNNNNNNNGG	1 cut(s)	717
BseNI	ACTGG	2 cut(s)	312, 805
Bsh1285I	CGRYCG	1 cut(s)	139
BshFI	GGCC	1 cut(s)	266
BshVI	ATCGAT	1 cut(s)	135
BsiEI	CGRYCG	1 cut(s)	139
BsiSI	CCGG	1 cut(s)	530
BslFI	GGGAC	1 cut(s)	422
BslI	CCNNNNNNNGG	1 cut(s)	717
BsmAI	GTCTC	1 cut(s)	862
BsmFI	GGGAC	1 cut(s)	422
BsnI	GGCC	1 cut(s)	266
Bsp1407I	TGTACA	1 cut(s)	327
Bsp143I	GATC	5 cut(s)	126, 136, 456, 534, 817
Bsp19I	CCATGG	1 cut(s)	711
BspANI	GGCC	1 cut(s)	266
BspDI	ATCGAT	1 cut(s)	135
BspHI	TCATGA	1 cut(s)	85
BspLI	GGNNCC	1 cut(s)	310
BspPI	GGATC	1 cut(s)	529
BsrGI	TGTACA	1 cut(s)	327
BsrI	ACTGG	2 cut(s)	312, 805
BssECI	CCNNGG	1 cut(s)	711
BssMI	GATC	5 cut(s)	126, 136, 456, 534, 817
BssNI	GRCGYC	1 cut(s)	767
BssT1I	CCWWGG	1 cut(s)	711
Bst2UI	CCWGG	1 cut(s)	793
Bst4CI	ACNGT	5 cut(s)	409, 428, 626, 670, 784
Bst6I	CTCTTC	2 cut(s)	121, 515
BstACI	GRCGYC	1 cut(s)	767
BstAUI	TGTACA	1 cut(s)	327
BstDEI	CTNAG	1 cut(s)	743
BstDSI	CCRYGG	1 cut(s)	711
BstEII	GGTNACC	1 cut(s)	157
BstKTI	GATC	5 cut(s)	129, 139, 459, 537, 820
BstMAI	GTCTC	1 cut(s)	862
BstMBI	GATC	5 cut(s)	126, 136, 456, 534, 817
BstMCI	CGRYCG	1 cut(s)	139
BstNI	CCWGG	1 cut(s)	793
BstNSI	RCATGY	1 cut(s)	598
BstPI	GGTNACC	1 cut(s)	157
BstSCI	CCNGG	1 cut(s)	791
BstV2I	GAAGAC	1 cut(s)	635
BstX2I	RGATCY	1 cut(s)	126
BstXI	CCANNNNNNTGG	1 cut(s)	580
BstYI	RGATCY	1 cut(s)	126
Bsu15I	ATCGAT	1 cut(s)	135
BsuRI	GGCC	1 cut(s)	266
BsuTUI	ATCGAT	1 cut(s)	135
BtgI	CCRYGG	1 cut(s)	711
BtsIMutI	CAGTG	1 cut(s)	666
CciI	TCATGA	1 cut(s)	85
Cfr13I	GGNCC	1 cut(s)	66
ClaI	ATCGAT	1 cut(s)	135
CseI	GACGC	1 cut(s)	756
Csp6I	GTAC	3 cut(s)	231, 328, 359
CviAII	CATG	5 cut(s)	86, 454, 595, 712, 733
CviJI	RGCY	5 cut(s)	266, 481, 694, 731, 750
CviKI_1	RGCY	5 cut(s)	266, 481, 694, 731, 750
CviQI	GTAC	3 cut(s)	231, 328, 359
DdeI	CTNAG	1 cut(s)	743
DpnI	GATC	5 cut(s)	128, 138, 458, 536, 819
DpnII	GATC	5 cut(s)	126, 136, 456, 534, 817
Eam1104I	CTCTTC	2 cut(s)	121, 515
EarI	CTCTTC	2 cut(s)	121, 515
Eco130I	CCWWGG	1 cut(s)	711
Eco47I	GGWCC	1 cut(s)	66
Eco91I	GGTNACC	1 cut(s)	157
EcoO65I	GGTNACC	1 cut(s)	157
EcoRII	CCWGG	1 cut(s)	791
EcoT14I	CCWWGG	1 cut(s)	711
ErhI	CCWWGG	1 cut(s)	711
FaeI	CATG	5 cut(s)	89, 457, 598, 715, 736
FaqI	GGGAC	1 cut(s)	422
FatI	CATG	5 cut(s)	85, 453, 594, 711, 732
FauNDI	CATATG	1 cut(s)	630
FspBI	CTAG	2 cut(s)	290, 503
GsuI	CTGGAG	1 cut(s)	819
HaeIII	GGCC	1 cut(s)	266
HapII	CCGG	1 cut(s)	530
HgaI	GACGC	1 cut(s)	756
Hin1I	GRCGYC	1 cut(s)	767
Hin1II	CATG	5 cut(s)	89, 457, 598, 715, 736
HinfI	GANTC	2 cut(s)	73, 806
HpaII	CCGG	1 cut(s)	530
HphI	GGTGA	4 cut(s)	151, 394, 544, 815
Hpy188I	TCNGA	4 cut(s)	515, 549, 727, 756
Hpy188III	TCNNGA	4 cut(s)	86, 241, 466, 859
HpyAV	CCTTC	2 cut(s)	427, 548
HpyCH4III	ACNGT	5 cut(s)	409, 428, 626, 670, 784
HpyCH4V	TGCA	2 cut(s)	62, 350
HpyF3I	CTNAG	1 cut(s)	743
Hsp92I	GRCGYC	1 cut(s)	767
Hsp92II	CATG	5 cut(s)	89, 457, 598, 715, 736
Kzo9I	GATC	5 cut(s)	126, 136, 456, 534, 817
LweI	GCATC	1 cut(s)	3
MaeI	CTAG	2 cut(s)	290, 503
MaeIII	GTNAC	4 cut(s)	157, 590, 620, 664
MalI	GATC	5 cut(s)	128, 138, 458, 536, 819
MboI	GATC	5 cut(s)	126, 136, 456, 534, 817
MboII	GAAGA	8 cut(s)	108, 196, 278, 482, 502, 613, 635, 647
MflI	RGATCY	1 cut(s)	126
MlyI	GAGTC	1 cut(s)	815
MnlI	CCTC	4 cut(s)	22, 510, 518, 570
MseI	TTAA	1 cut(s)	317
MslI	CAYNNNNRTG	5 cut(s)	11, 41, 204, 303, 801
MspA1I	CMGCKG	1 cut(s)	694
MspI	CCGG	1 cut(s)	530
MspR9I	CCNGG	1 cut(s)	793
MvaI	CCWGG	1 cut(s)	793
NcoI	CCATGG	1 cut(s)	711
NdeI	CATATG	1 cut(s)	630
NdeII	GATC	5 cut(s)	126, 136, 456, 534, 817
NlaIII	CATG	5 cut(s)	89, 457, 598, 715, 736
NlaIV	GGNNCC	1 cut(s)	310
NmuCI	GTSAC	2 cut(s)	157, 664
NspI	RCATGY	1 cut(s)	598
PagI	TCATGA	1 cut(s)	85
PciI	ACATGT	1 cut(s)	594
PfeI	GAWTC	1 cut(s)	73
PflMI	CCANNNNNTGG	1 cut(s)	717
Ple19I	CGATCG	1 cut(s)	139
PleI	GAGTC	1 cut(s)	814
PpsI	GAGTC	1 cut(s)	814
PscI	ACATGT	1 cut(s)	594
PsiI	TTATAA	1 cut(s)	609
Psp6I	CCWGG	1 cut(s)	791
PspEI	GGTNACC	1 cut(s)	157
PspGI	CCWGG	1 cut(s)	791
PspN4I	GGNNCC	1 cut(s)	310
PspPI	GGNCC	1 cut(s)	66
PsuI	RGATCY	1 cut(s)	126
PvuI	CGATCG	1 cut(s)	139
PvuII	CAGCTG	1 cut(s)	694
RsaI	GTAC	3 cut(s)	232, 329, 360
RsaNI	GTAC	3 cut(s)	231, 328, 359
RseI	CAYNNNNRTG	5 cut(s)	11, 41, 204, 303, 801
SaqAI	TTAA	1 cut(s)	317
Sau3AI	GATC	5 cut(s)	126, 136, 456, 534, 817
Sau96I	GGNCC	1 cut(s)	66
ScaI	AGTACT	2 cut(s)	232, 360
SchI	GAGTC	1 cut(s)	815
ScrFI	CCNGG	1 cut(s)	793
SetI	ASST	9 cut(s)	33, 68, 218, 260, 307, 392, 419, 524, 696
SfaNI	GCATC	1 cut(s)	3
SinI	GGWCC	1 cut(s)	66
SmiMI	CAYNNNNRTG	5 cut(s)	11, 41, 204, 303, 801
SspI	AATATT	1 cut(s)	843
SspMI	CTAG	2 cut(s)	290, 503
StyD4I	CCNGG	1 cut(s)	791
StyI	CCWWGG	1 cut(s)	711
TaaI	ACNGT	5 cut(s)	409, 428, 626, 670, 784
TaqI	TCGA	3 cut(s)	135, 139, 860
TatI	WGTACW	3 cut(s)	230, 327, 358
TfiI	GAWTC	1 cut(s)	73
Tru1I	TTAA	1 cut(s)	317
Tru9I	TTAA	1 cut(s)	317
TscAI	CASTG	1 cut(s)	673
TseFI	GTSAC	2 cut(s)	157, 664
Tsp45I	GTSAC	2 cut(s)	157, 664
TspDTI	ATGAA	6 cut(s)	188, 287, 312, 627, 635, 670
TspRI	CASTG	1 cut(s)	673
Van91I	CCANNNNNTGG	1 cut(s)	717
VpaK11BI	GGWCC	1 cut(s)	66
XapI	RAATTY	2 cut(s)	758, 787
XceI	RCATGY	1 cut(s)	598
XcmI	CCANNNNNNNNNTGG	1 cut(s)	13
XspI	CTAG	2 cut(s)	290, 503
ZrmI	AGTACT	2 cut(s)	232, 360

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