Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001152

Physical Location & Seq

Genomic Coordinates Forward (+)

84404532 .. 84405629

Gene Structure 1098 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG548900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

ATGATTGTAACACCAATTGTACAATTCTCATACACTCCTCAAAAACAACTCCGAAGATCAACTAAAGATTCACAGGTCAGAAACATCCAATCACAACGAAATAACTCCGGAACTTTTCAGATTCTTTGTTGTGTTCACAATGAAGAAAGTGCCCGCAGCATCATCACCTTCTTAGAAGCTTCAAATCCAACAGAAGCAAGCCCCATATGCATGTACATTGTCCACGTAGTTGATTTAATTGGCAGTTCTGCACCACAATTGACACCTTACGAGAAGAAAAAGAAATTTAGGCGGTTGGATTCACCTACACATCAAATGATGCGGGCCTTCGAGAATTACTCAGAAAACTCAAGAGGACCAGTGATAATTCATCCATATACTATGGTGGCTCCTTATAAATCCATGCCCGAGACCATTTTTCGTCTAGCTCGGGAAAAGCTCGCTCCTCTGATTATCATCTCATTCCCTGATAACCACCACCAGTCTATTGTTGGCACTGCTCCCACTAGCCCCATACGCCAATTGAACCTTAATTTACAACAATTTTCTCAGTGTACAATTGGAATACTAGTTGACAAAGGCTTGCCTTGTCGGCCAAGTGTCTCCAACTTCTCTTACATTGTGGCCGTATTTTTCATTGGTGGACCAGATGACCGTGAGACATTAGCATATGCATCACGCATGGCAGACAACCCTGACGTGGGCATCACAGTGTTCAGGATTCTCGTGCGTATCAAGAAGATAGACAGTTCTGAGGAAGAGGAGAGAGAGTTTAAGCTAGACGAGTCATTGTTGGATGAGTTTAAGCTAAGAAACACCAGGAATGATAGGTTGAATTGGCGTGATATTGAGGTGGATGATGGTGTTGAGACTGTTGAGGCTATTAAAAATTTGCAGGGTGAGTACGACCTAGTGATGGTGGGGCGGCGACATTTGGATGTGTCGTTGAGGGATGAAGAAATGACAGACTTATTGCACAATCCAGAGCTGGGAGTGATTGGTGACATGCTCGCTTCTTCAGATTTTTGTGGTGGAATGGTGAATGTGTTGGTGATGCAAGAAAGTAGGAGCTTGAGTTGTGGAGCTTATTGTAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0006810 GO:0006811 GO:0006812 GO:0006885 GO:0008150 GO:0012505 GO:0015672 GO:0042592 GO:0044464 GO:0048878 GO:0050801 GO:0051179 GO:0051234 GO:0055067 GO:0055080 GO:0065007 GO:0065008 GO:0098771

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Na_H_Exchanger

Protein Analysis

365

Amino Acids

41.38

Weight (kDa)

5.7

Isoelectric Point (pI)

52.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CHX17_C	PF23259	207 - 354	2e-12	Plant cation/H(+) antiporter, C-terminal domain

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

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

Orthologous Genes (Group: OG0001152)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43690 FvH4_7g25211 FvH4_7g25250 FvH4_7g25290 FvH4_7g25310
malus_domestica	MD01G1158700.v1.1 MD01G1158800.v1.1 MD07G1227200.v1.1 MD07G1227600.v1.1
prunus_persica	Prupe.2G257000_v2.0.a1 Prupe.2G257100_v2.0.a1
pyrus_communis	pycom01g17540
rosa_chinensis	RchiOBHm_Chr1g0371191 RchiOBHm_Chr1g0371201 RchiOBHm_Chr1g0371211
rosa_laevigata	RLG00000026978 RLG00000026979 RLG00000026980 RLG00000026981 RLG00000026983 RLG00000036771
rosa_multiflora	Rmu_co8222838.1_g000001 Rmu_sc0000631.1_g000023 Rmu_sc0001018.1_g000042 Rmu_sc0001018.1_g000044 Rmu_sc0001018.1_g000049 Rmu_sc0001018.1_g000050 Rmu_sc0001018.1_g000051 Rmu_sc0008081.1_g000003
rosa_roxburghii	Rroxscaffold_4G00285900 Rroxscaffold_4G00285910
rosa_rugosa	Rorug01G0361700 Rorug01G0361900 Rorug01G0362000 Rorug01G0362200 Rorug05G0460600
rosa_samantha	Rh1AG372000 Rh1AG372200 Rh1AG372300 Rh1BG335100 Rh1BG335500 Rh1BG335700 Rh1BG335800 Rh1CG348600 Rh1CG349000 Rh1CG349100 Rh1CG349200 Rh1DG366500 Rh1DG366900 Rh1DG367000 Rh5BG537300 Rh5CG560800 Rh5DG548900
rosa_wichuraiana	Rw1G032720 Rw1G032730 Rw1G032740 Rw5G047750 Rw5G047880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	396
AccIII	TCCGGA	1 cut(s)	107
AciI	CCGC	4 cut(s)	154, 292, 322, 925
AcoI	YGGCCR	2 cut(s)	593, 624
AcsI	RAATTY	2 cut(s)	284, 889
AcuI	CTGAAG	1 cut(s)	1002
AfaI	GTAC	4 cut(s)	21, 215, 556, 905
AfiI	CCNNNNNNNGG	4 cut(s)	700, 701, 916, 989
AgsI	TTSAA	3 cut(s)	183, 526, 835
AhlI	ACTAGT	1 cut(s)	568
AjiI	CACGTC	1 cut(s)	700
AjnI	CCWGG	1 cut(s)	818
AluBI	AGCT	8 cut(s)	179, 428, 439, 778, 808, 988, 1071, 1085
AluI	AGCT	8 cut(s)	179, 428, 439, 778, 808, 988, 1071, 1085
Alw26I	GTCTC	4 cut(s)	404, 607, 653, 863
Ama87I	CYCGRG	2 cut(s)	407, 429
Aor13HI	TCCGGA	1 cut(s)	107
AoxI	GGCC	3 cut(s)	324, 593, 624
ApeKI	GCWGC	1 cut(s)	156
ApoI	RAATTY	2 cut(s)	284, 889
AspS9I	GGNCC	3 cut(s)	324, 356, 644
AsuHPI	GGTGA	6 cut(s)	157, 294, 911, 1013, 1051, 1063
AvaI	CYCGRG	2 cut(s)	407, 429
AvaII	GGWCC	2 cut(s)	356, 644
BaeGI	GKGCMC	1 cut(s)	154
BauI	CACGAG	1 cut(s)	725
BbvI	GCAGC	1 cut(s)	168
BccI	CCATC	2 cut(s)	854, 910
BceAI	ACGGC	1 cut(s)	611
BciT130I	CCWGG	1 cut(s)	820
BcoDI	GTCTC	4 cut(s)	404, 607, 653, 863
BcuI	ACTAGT	1 cut(s)	568
BfaI	CTAG	5 cut(s)	425, 507, 569, 779, 911
BglI	GCCNNNNNGGC	1 cut(s)	592
BisI	GCNGC	2 cut(s)	157, 926
BlsI	GCNGC	2 cut(s)	158, 927
Bme1390I	CCNGG	1 cut(s)	820
Bme18I	GGWCC	2 cut(s)	356, 644
BmeT110I	CYCGRG	2 cut(s)	407, 429
BmgBI	CACGTC	1 cut(s)	700
BmgT120I	GGNCC	3 cut(s)	324, 356, 644
BmiI	GGNNCC	1 cut(s)	390
BmrFI	CCNGG	1 cut(s)	820
BmsI	GCATC	5 cut(s)	168, 309, 683, 714, 1044
BplI	GAGNNNNNCTC	2 cut(s)	323, 355
BpuEI	CTTGAG	2 cut(s)	334, 1093
BsaAI	YACGTR	1 cut(s)	226
BsaBI	GATNNNNATC	1 cut(s)	455
BsaI	GGTCTC	1 cut(s)	404
BsaWI	WCCGGW	1 cut(s)	107
BsaXI	ACNNNNNCTCC	4 cut(s)	755, 785, 1060, 1090
Bsc4I	CCNNNNNNNGG	4 cut(s)	700, 701, 916, 989
Bse1I	ACTGG	2 cut(s)	359, 481
Bse8I	GATNNNNATC	1 cut(s)	455
BseAI	TCCGGA	1 cut(s)	107
BseBI	CCWGG	1 cut(s)	820
BseGI	GGATG	6 cut(s)	84, 370, 802, 862, 943, 958
BseJI	GATNNNNATC	1 cut(s)	455
BseLI	CCNNNNNNNGG	4 cut(s)	700, 701, 916, 989
BseMII	CTCAG	3 cut(s)	354, 563, 744
BseNI	ACTGG	2 cut(s)	359, 481
BseRI	GAGGAG	3 cut(s)	27, 435, 776
BseSI	GKGCMC	1 cut(s)	154
BseXI	GCAGC	1 cut(s)	168
BseYI	CCCAGC	1 cut(s)	988
BsgI	GTGCAG	1 cut(s)	234
BshFI	GGCC	3 cut(s)	326, 595, 626
BsiHKCI	CYCGRG	2 cut(s)	407, 429
BsiSI	CCGG	1 cut(s)	108
BslI	CCNNNNNNNGG	4 cut(s)	700, 701, 916, 989
BsmAI	GTCTC	4 cut(s)	404, 607, 653, 863
BsnI	GGCC	3 cut(s)	326, 595, 626
Bso31I	GGTCTC	1 cut(s)	404
BsoBI	CYCGRG	2 cut(s)	407, 429
Bsp1286I	GDGCHC	1 cut(s)	154
Bsp13I	TCCGGA	1 cut(s)	107
Bsp1407I	TGTACA	3 cut(s)	19, 213, 554
Bsp143I	GATC	1 cut(s)	56
BspACI	CCGC	4 cut(s)	154, 292, 322, 925
BspANI	GGCC	3 cut(s)	326, 595, 626
BspCNI	CTCAG	3 cut(s)	353, 562, 745
BspEI	TCCGGA	1 cut(s)	107
BspLI	GGNNCC	1 cut(s)	390
BspTNI	GGTCTC	1 cut(s)	404
BsrGI	TGTACA	3 cut(s)	19, 213, 554
BsrI	ACTGG	2 cut(s)	359, 481
BssMI	GATC	1 cut(s)	56
BssSI	CACGAG	1 cut(s)	725
Bst2BI	CACGAG	1 cut(s)	725
Bst2UI	CCWGG	1 cut(s)	820
Bst4CI	ACNGT	4 cut(s)	656, 712, 749, 874
Bst6I	CTCTTC	1 cut(s)	753
BstAUI	TGTACA	3 cut(s)	19, 213, 554
BstBAI	YACGTR	1 cut(s)	226
BstC8I	GCNNGC	6 cut(s)	154, 199, 324, 441, 584, 1011
BstDEI	CTNAG	5 cut(s)	172, 340, 549, 753, 809
BstF5I	GGATG	6 cut(s)	84, 370, 802, 862, 943, 958
BstKTI	GATC	1 cut(s)	59
BstMAI	GTCTC	4 cut(s)	404, 607, 653, 863
BstMBI	GATC	1 cut(s)	56
BstMWI	GCNNNNNNNGC	3 cut(s)	207, 516, 592
BstNI	CCWGG	1 cut(s)	820
BstNSI	RCATGY	2 cut(s)	214, 1009
BstSCI	CCNGG	1 cut(s)	818
BstSLI	GKGCMC	1 cut(s)	154
BstV1I	GCAGC	1 cut(s)	168
BsuRI	GGCC	3 cut(s)	326, 595, 626
BtrI	CACGTC	1 cut(s)	700
BtsCI	GGATG	6 cut(s)	84, 370, 802, 862, 943, 958
BtsI	GCAGTG	1 cut(s)	495
BtsIMutI	CAGTG	4 cut(s)	366, 495, 557, 717
Cac8I	GCNNGC	6 cut(s)	154, 199, 324, 441, 584, 1011
Cfr13I	GGNCC	3 cut(s)	324, 356, 644
Csp6I	GTAC	4 cut(s)	20, 214, 555, 904
CviAII	CATG	4 cut(s)	211, 403, 682, 1006
CviQI	GTAC	4 cut(s)	20, 214, 555, 904
DdeI	CTNAG	5 cut(s)	172, 340, 549, 753, 809
DpnI	GATC	1 cut(s)	58
DpnII	GATC	1 cut(s)	56
EaeI	YGGCCR	2 cut(s)	593, 624
Eam1104I	CTCTTC	1 cut(s)	753
EarI	CTCTTC	1 cut(s)	753
Eco31I	GGTCTC	1 cut(s)	404
Eco47I	GGWCC	2 cut(s)	356, 644
Eco57I	CTGAAG	1 cut(s)	1002
Eco88I	CYCGRG	2 cut(s)	407, 429
EcoRII	CCWGG	1 cut(s)	818
EcoT22I	ATGCAT	2 cut(s)	212, 676
FaeI	CATG	4 cut(s)	214, 406, 685, 1009
FatI	CATG	4 cut(s)	210, 402, 681, 1005
FauI	CCCGC	2 cut(s)	161, 315
FauNDI	CATATG	2 cut(s)	206, 670
Fnu4HI	GCNGC	2 cut(s)	157, 926
FokI	GGATG	6 cut(s)	71, 357, 809, 869, 950, 965
Fsp4HI	GCNGC	2 cut(s)	157, 926
FspBI	CTAG	5 cut(s)	425, 507, 569, 779, 911
GluI	GCNGC	2 cut(s)	157, 926
GsaI	CCCAGC	1 cut(s)	992
HaeIII	GGCC	3 cut(s)	326, 595, 626
HapII	CCGG	1 cut(s)	108
Hin1II	CATG	4 cut(s)	214, 406, 685, 1009
HincII	GTYRAC	1 cut(s)	574
HindII	GTYRAC	1 cut(s)	574
HindIII	AAGCTT	1 cut(s)	177
HinfI	GANTC	5 cut(s)	68, 121, 299, 721, 785
HpaII	CCGG	1 cut(s)	108
HphI	GGTGA	6 cut(s)	157, 294, 911, 1013, 1051, 1063
Hpy166II	GTNNAC	5 cut(s)	136, 223, 555, 574, 644
Hpy188I	TCNGA	7 cut(s)	53, 80, 120, 343, 450, 754, 1021
Hpy188III	TCNNGA	7 cut(s)	108, 331, 351, 431, 718, 736, 983
Hpy8I	GTNNAC	5 cut(s)	136, 223, 555, 574, 644
HpyAV	CCTTC	2 cut(s)	178, 337
HpyCH4III	ACNGT	4 cut(s)	656, 712, 749, 874
HpyCH4IV	ACGT	2 cut(s)	225, 699
HpyCH4V	TGCA	6 cut(s)	210, 251, 674, 895, 976, 1057
HpyF10VI	GCNNNNNNNGC	3 cut(s)	207, 516, 592
HpyF3I	CTNAG	5 cut(s)	172, 340, 549, 753, 809
HpySE526I	ACGT	2 cut(s)	225, 699
Hsp92II	CATG	4 cut(s)	214, 406, 685, 1009
Kpn2I	TCCGGA	1 cut(s)	107
Kzo9I	GATC	1 cut(s)	56
LmnI	GCTCC	5 cut(s)	394, 448, 505, 1068, 1082
Lsp1109I	GCAGC	1 cut(s)	168
LweI	GCATC	5 cut(s)	168, 309, 683, 714, 1044
MaeI	CTAG	5 cut(s)	425, 507, 569, 779, 911
MaeII	ACGT	2 cut(s)	225, 699
MaeIII	GTNAC	3 cut(s)	7, 1001, 1091
MalI	GATC	1 cut(s)	58
MboI	GATC	1 cut(s)	56
MboII	GAAGA	7 cut(s)	66, 155, 286, 751, 770, 968, 1008
MfeI	CAATTG	4 cut(s)	15, 257, 521, 558
MhlI	GDGCHC	1 cut(s)	154
MlyI	GAGTC	1 cut(s)	794
MmeI	TCCRAC	4 cut(s)	212, 276, 630, 774
MnlI	CCTC	8 cut(s)	48, 347, 456, 748, 754, 844, 871, 942
Mph1103I	ATGCAT	2 cut(s)	212, 676
MroI	TCCGGA	1 cut(s)	107
MseI	TTAA	5 cut(s)	236, 531, 774, 804, 885
MslI	CAYNNNNRTG	3 cut(s)	209, 710, 936
MspI	CCGG	1 cut(s)	108
MspR9I	CCNGG	1 cut(s)	820
MunI	CAATTG	4 cut(s)	15, 257, 521, 558
MvaI	CCWGG	1 cut(s)	820
MwoI	GCNNNNNNNGC	3 cut(s)	207, 516, 592
NdeI	CATATG	2 cut(s)	206, 670
NdeII	GATC	1 cut(s)	56
NlaIII	CATG	4 cut(s)	214, 406, 685, 1009
NlaIV	GGNNCC	1 cut(s)	390
NmuCI	GTSAC	1 cut(s)	1001
NsiI	ATGCAT	2 cut(s)	212, 676
NspI	RCATGY	2 cut(s)	214, 1009
PfeI	GAWTC	4 cut(s)	68, 121, 299, 721
PkrI	GCNGC	2 cut(s)	158, 927
PleI	GAGTC	1 cut(s)	793
PpsI	GAGTC	1 cut(s)	793
Ppu21I	YACGTR	1 cut(s)	226
PsiI	TTATAA	1 cut(s)	396
Psp6I	CCWGG	1 cut(s)	818
PspFI	CCCAGC	1 cut(s)	988
PspGI	CCWGG	1 cut(s)	818
PspN4I	GGNNCC	1 cut(s)	390
PspPI	GGNCC	3 cut(s)	324, 356, 644
RsaI	GTAC	4 cut(s)	21, 215, 556, 905
RsaNI	GTAC	4 cut(s)	20, 214, 555, 904
RseI	CAYNNNNRTG	3 cut(s)	209, 710, 936
SaqAI	TTAA	5 cut(s)	236, 531, 774, 804, 885
SatI	GCNGC	2 cut(s)	157, 926
Sau3AI	GATC	1 cut(s)	56
Sau96I	GGNCC	3 cut(s)	324, 356, 644
SchI	GAGTC	1 cut(s)	794
ScrFI	CCNGG	1 cut(s)	820
SduI	GDGCHC	1 cut(s)	154
SfaNI	GCATC	5 cut(s)	168, 309, 683, 714, 1044
SinI	GGWCC	2 cut(s)	356, 644
SmiMI	CAYNNNNRTG	3 cut(s)	209, 710, 936
SmlI	CTYRAG	2 cut(s)	349, 1072
SmoI	CTYRAG	2 cut(s)	349, 1072
SpeI	ACTAGT	1 cut(s)	568
SsiI	CCGC	4 cut(s)	154, 292, 322, 925
SspMI	CTAG	5 cut(s)	425, 507, 569, 779, 911
StyD4I	CCNGG	1 cut(s)	818
TaaI	ACNGT	4 cut(s)	656, 712, 749, 874
TaiI	ACGT	2 cut(s)	228, 702
TaqI	TCGA	1 cut(s)	330
TatI	WGTACW	3 cut(s)	19, 213, 554
TauI	GCSGC	1 cut(s)	928
TfiI	GAWTC	4 cut(s)	68, 121, 299, 721
Tru1I	TTAA	5 cut(s)	236, 531, 774, 804, 885
Tru9I	TTAA	5 cut(s)	236, 531, 774, 804, 885
TscAI	CASTG	4 cut(s)	366, 502, 557, 717
TseFI	GTSAC	1 cut(s)	1001
TseI	GCWGC	1 cut(s)	156
Tsp45I	GTSAC	1 cut(s)	1001
TspDTI	ATGAA	4 cut(s)	156, 359, 625, 969
TspRI	CASTG	4 cut(s)	366, 502, 557, 717
VpaK11BI	GGWCC	2 cut(s)	356, 644
XapI	RAATTY	2 cut(s)	284, 889
XceI	RCATGY	2 cut(s)	214, 1009
XcmI	CCANNNNNNNNNTGG	1 cut(s)	488
XspI	CTAG	5 cut(s)	425, 507, 569, 779, 911
Zsp2I	ATGCAT	2 cut(s)	212, 676

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