Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0002198

Physical Location & Seq

Genomic Coordinates Forward (+)

8552865 .. 8557068

Gene Structure 4204 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00006540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1332 bp

ATGAGTTATAAGTTACCAGTTGAAATGGAATCAATAGATAATGAATCTACACATGAATTCAAAGATGAGATTCTTTCTATTCCGGAGATGAAGGCTCAAAAGTCGCAACCCATTCAAGAATTGGGGGAAGGCTCCTTTTCAGGAGGTTTACAAGCTAAGGGTGATAAAATGTGGAGGAATGTTGTTTGTAGGAGTATAAAGACTGTAGTTTTGTCAAACAAACTCAACATGCTTATGCCTTTTGGGCCTCTAGCGATTTTTGTCCATATATTCACTGGCCATAATGGGTGGGTCTTTTTCTTGACCTTGTTGGGTATAACTCCTTTGGCTGAGCGTTTAGGTTATGCTACAGAGCAGCTGGCATTCTATACTGGACCTACTGTTGGGGGTCTTTTAAATGCTACTTTTGGAAATGCAACAGAACTGATTATATCAATTTATGCACTGAAACATGGAATGTTACGCGTTGTTCAGCAGTCATTATTAGGCTCTATTCTGTCAAATATGCTGCTGGTGCTTGGATGTGCATTCTTCAGTGGTGGGCTTGTTTTTCAAGATAAGGAACAAGTGTTTAACAAGGCAACTGCTGTTGTGAACTCAGGCTTGCTATTAATGGCAGTCATGGGACTACTTTTCCCAGCTGTTCTGCACTACACTCACACTGAGGTGCATTTTGGGAAGTCGGAGTTGGCACTTTCAAGGTTTAGTAGTTGCATCATGCTTCTAGCATATGCCATATATCTTTTCTTCCAGTTAAAGAGTCAAAAGAATCTATATGTTCCTCTAAATGAGGAAGGGAGTCAAAATGAAGAGAACTCAGATGATGATGATGAGACACCCGAGATTTCTAAATGGGAATCAATAATTTGGCTTATAATAATGACGAGTTGGATCTCATTCCTATCAGAATATTTAGTTAATGCCATAAAGGGAGCATCTGTAGCATGGAAAATCCCTATTTCATTTATTAGTGTTATCTTACTCCCAATTGTGGGTAATGCTGCAGAGCATGCTAGTGCTATTATGTTTGCCATGAAGGACAAGCTTGACATTTCATTGGGAGTGGCAATAGGGTCATCGACACAGATATCTATGTTCGGGATTCCTTTTTGTGTAGTTATTGGGTGGATTATGGGACGCCCTATGGACTTGAACTTTCAACTCTTTGAGACAGCCACACTTTTTATAACCGTCTTAGTTGTAGCCTTTTTACTGCAGGATGGAACCTCTAATTACTTTAAAGGGTTGATGCTTATTCTTTGTTATCTGATAGTTGCAGCAAGTTTCTTTGTTCATGTAGATCCTTCGGCTGCAGATGAACCTGGGACTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0006810 GO:0006811 GO:0006812 GO:0006816 GO:0008150 GO:0008324 GO:0009705 GO:0015075 GO:0015077 GO:0015078 GO:0015085 GO:0015291 GO:0015297 GO:0015298 GO:0015299 GO:0015318 GO:0015368 GO:0015369 GO:0015491 GO:0015672 GO:0016020 GO:0022804 GO:0022857 GO:0022890 GO:0030001 GO:0031090 GO:0034220 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046873 GO:0051139 GO:0051179 GO:0051234 GO:0055085 GO:0070588 GO:0070838 GO:0072511 GO:0098588 GO:0098655 GO:0098660 GO:0098662 GO:0098805 GO:0099516 GO:1902600

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Na_Ca_ex

Protein Analysis

443

Amino Acids

48.8

Weight (kDa)

5.15

Isoelectric Point (pI)

34.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Na_Ca_ex	PF01699	97 - 252	3.1e-22	Sodium/calcium exchanger protein
Na_Ca_ex	PF01699	287 - 429	1.2e-24	Sodium/calcium exchanger 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: OG0002198)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55730 AT1G55730 AT3G13320
fragaria_vesca	FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_3g41890 FvH4_6g40200 FvH4_6g40200 FvH4_6g40200
malus_domestica	MD03G1040300.v1.1 MD09G1134300.v1.1 MD11G1041700.v1.1 MD17G1123100.v1.1
prunus_persica	Prupe.3G192400_v2.0.a1 Prupe.6G032600_v2.0.a1 Prupe.6G032600_v2.0.a1 Prupe.6G032600_v2.0.a1
pyrus_communis	pycom03g03100 pycom11g03540
rosa_chinensis	RchiOBHm_Chr2g0155221 RchiOBHm_Chr5g0075081
rosa_laevigata	RLG00000020827 RLG00000036528
rosa_multiflora	Rmu_sc0006984.1_g000024 Rmu_sc0012066.1_g000002 Rmu_sc0028924.1_g000002
rosa_roxburghii	Rroxscaffold_1G00006540 Rroxscaffold_2G00093860
rosa_rugosa	Rorug02G0446100 Rorug02G0446100 Rorug05G0436000 Rorug05G0436100
rosa_samantha	Rh2AG512500 Rh2CG497500 Rh5AG493500 Rh5CG538700
rosa_wichuraiana	Rw2G042100 Rw5G045760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	9, 875, 1187
AccII	CGCG	1 cut(s)	465
AccIII	TCCGGA	1 cut(s)	82
AclWI	GGATC	2 cut(s)	899, 1295
AcoI	YGGCCR	1 cut(s)	277
AcsI	RAATTY	1 cut(s)	56
AcuI	CTGAAG	1 cut(s)	517
AcyI	GRCGYC	1 cut(s)	1138
AfiI	CCNNNNNNNGG	3 cut(s)	383, 991, 992
AflIII	ACRYGT	1 cut(s)	463
AgsI	TTSAA	7 cut(s)	23, 61, 116, 554, 699, 1153, 1160
AjnI	CCWGG	1 cut(s)	1321
AjuI	GAANNNNNNNTTGG	2 cut(s)	671, 703
AleI	CACNNNNGTG	1 cut(s)	665
AluBI	AGCT	4 cut(s)	155, 358, 641, 1045
AluI	AGCT	4 cut(s)	155, 358, 641, 1045
Alw26I	GTCTC	2 cut(s)	827, 1163
AlwI	GGATC	2 cut(s)	899, 1295
Ama87I	CYCGRG	1 cut(s)	839
Aor13HI	TCCGGA	1 cut(s)	82
AoxI	GGCC	2 cut(s)	245, 277
ApeKI	GCWGC	5 cut(s)	355, 508, 1001, 1277, 1310
ApoI	RAATTY	1 cut(s)	56
ArsI	GACNNNNNNTTYG	2 cut(s)	193, 225
AseI	ATTAAT	1 cut(s)	611
AspS9I	GGNCC	2 cut(s)	245, 374
AsuHPI	GGTGA	1 cut(s)	173
AvaI	CYCGRG	1 cut(s)	839
AvaII	GGWCC	1 cut(s)	374
BalI	TGGCCA	1 cut(s)	279
BbvI	GCAGC	5 cut(s)	367, 495, 988, 1289, 1297
BccI	CCATC	1 cut(s)	1214
BciT130I	CCWGG	1 cut(s)	1323
BcoDI	GTCTC	2 cut(s)	827, 1163
BfaI	CTAG	3 cut(s)	251, 725, 1014
BfmI	CTRYAG	6 cut(s)	204, 348, 939, 1002, 1214, 1311
BglI	GCCNNNNNGGC	1 cut(s)	244
BisI	GCNGC	5 cut(s)	356, 509, 1002, 1278, 1311
BlpI	GCTNAGC	1 cut(s)	330
BlsI	GCNGC	5 cut(s)	357, 510, 1003, 1279, 1312
Bme1390I	CCNGG	1 cut(s)	1323
Bme18I	GGWCC	1 cut(s)	374
BmeT110I	CYCGRG	1 cut(s)	839
BmgT120I	GGNCC	2 cut(s)	245, 374
BmiI	GGNNCC	2 cut(s)	133, 1225
BmrFI	CCNGG	1 cut(s)	1323
BmsI	GCATC	3 cut(s)	723, 944, 1239
Bpu10I	CCTNAGC	1 cut(s)	156
Bpu1102I	GCTNAGC	1 cut(s)	330
BsaHI	GRCGYC	1 cut(s)	1138
BsaJI	CCNNGG	1 cut(s)	1322
BsaWI	WCCGGW	1 cut(s)	82
BsaXI	ACNNNNNCTCC	2 cut(s)	924, 954
Bsc4I	CCNNNNNNNGG	3 cut(s)	383, 991, 992
Bse1I	ACTGG	4 cut(s)	17, 280, 376, 751
BseAI	TCCGGA	1 cut(s)	82
BseBI	CCWGG	1 cut(s)	1323
BseDI	CCNNGG	1 cut(s)	1322
BseGI	GGATG	2 cut(s)	527, 1225
BseLI	CCNNNNNNNGG	3 cut(s)	383, 991, 992
BseMII	CTCAG	4 cut(s)	321, 612, 654, 831
BseNI	ACTGG	4 cut(s)	17, 280, 376, 751
BseXI	GCAGC	5 cut(s)	367, 495, 988, 1289, 1297
BseYI	CCCAGC	1 cut(s)	637
BsgI	GTGCAG	1 cut(s)	632
Bsh1236I	CGCG	1 cut(s)	465
BshFI	GGCC	2 cut(s)	247, 279
BsiHKCI	CYCGRG	1 cut(s)	839
BsiSI	CCGG	1 cut(s)	83
BslFI	GGGAC	2 cut(s)	639, 1149
BslI	CCNNNNNNNGG	3 cut(s)	383, 991, 992
BsmAI	GTCTC	2 cut(s)	827, 1163
BsmFI	GGGAC	2 cut(s)	639, 1149
BsmI	GAATGC	2 cut(s)	362, 527
BsnI	GGCC	2 cut(s)	247, 279
BsoBI	CYCGRG	1 cut(s)	839
Bsp13I	TCCGGA	1 cut(s)	82
Bsp143I	GATC	2 cut(s)	891, 1300
Bsp1720I	GCTNAGC	1 cut(s)	330
BspANI	GGCC	2 cut(s)	247, 279
BspCNI	CTCAG	4 cut(s)	322, 611, 655, 830
BspEI	TCCGGA	1 cut(s)	82
BspFNI	CGCG	1 cut(s)	465
BspLI	GGNNCC	2 cut(s)	133, 1225
BspMAI	CTGCAG	3 cut(s)	1006, 1218, 1315
BspPI	GGATC	2 cut(s)	899, 1295
BsrI	ACTGG	4 cut(s)	17, 280, 376, 751
BssECI	CCNNGG	1 cut(s)	1322
BssMI	GATC	2 cut(s)	891, 1300
BssNI	GRCGYC	1 cut(s)	1138
Bst2UI	CCWGG	1 cut(s)	1323
Bst4CI	ACNGT	3 cut(s)	205, 382, 1192
Bst6I	CTCTTC	1 cut(s)	804
BstACI	GRCGYC	1 cut(s)	1138
BstAPI	GCANNNNNTGC	1 cut(s)	1010
BstC8I	GCNNGC	3 cut(s)	360, 605, 1011
BstDEI	CTNAG	7 cut(s)	156, 330, 598, 663, 817, 1195, 1329
BstF5I	GGATG	2 cut(s)	527, 1225
BstFNI	CGCG	1 cut(s)	465
BstKTI	GATC	2 cut(s)	894, 1303
BstMAI	GTCTC	2 cut(s)	827, 1163
BstMBI	GATC	2 cut(s)	891, 1300
BstMWI	GCNNNNNNNGC	4 cut(s)	244, 514, 941, 1010
BstNI	CCWGG	1 cut(s)	1323
BstNSI	RCATGY	2 cut(s)	232, 1013
BstSCI	CCNGG	1 cut(s)	1321
BstSFI	CTRYAG	6 cut(s)	204, 348, 939, 1002, 1214, 1311
BstUI	CGCG	1 cut(s)	465
BstV1I	GCAGC	5 cut(s)	367, 495, 988, 1289, 1297
BstX2I	RGATCY	2 cut(s)	891, 1300
BstYI	RGATCY	2 cut(s)	891, 1300
BsuRI	GGCC	2 cut(s)	247, 279
BtsCI	GGATG	2 cut(s)	527, 1225
BtsIMutI	CAGTG	4 cut(s)	273, 443, 541, 660
Cac8I	GCNNGC	3 cut(s)	360, 605, 1011
Cfr13I	GGNCC	2 cut(s)	245, 374
CseI	GACGC	1 cut(s)	1146
CviAII	CATG	9 cut(s)	53, 229, 452, 622, 718, 945, 1010, 1033, 1295
DdeI	CTNAG	7 cut(s)	156, 330, 598, 663, 817, 1195, 1329
DpnI	GATC	2 cut(s)	893, 1302
DpnII	GATC	2 cut(s)	891, 1300
DraI	TTTAAA	2 cut(s)	396, 1240
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	1 cut(s)	804
EarI	CTCTTC	1 cut(s)	804
Eco32I	GATATC	1 cut(s)	1089
Eco47I	GGWCC	1 cut(s)	374
Eco57I	CTGAAG	1 cut(s)	517
Eco88I	CYCGRG	1 cut(s)	839
EcoRI	GAATTC	1 cut(s)	56
EcoRII	CCWGG	1 cut(s)	1321
EcoRV	GATATC	1 cut(s)	1089
FaeI	CATG	9 cut(s)	56, 232, 455, 625, 721, 948, 1013, 1036, 1298
FaqI	GGGAC	2 cut(s)	639, 1149
FatI	CATG	9 cut(s)	52, 228, 451, 621, 717, 944, 1009, 1032, 1294
FauNDI	CATATG	1 cut(s)	730
Fnu4HI	GCNGC	5 cut(s)	356, 509, 1002, 1278, 1311
FokI	GGATG	2 cut(s)	534, 1232
Fsp4HI	GCNGC	5 cut(s)	356, 509, 1002, 1278, 1311
FspBI	CTAG	3 cut(s)	251, 725, 1014
GluI	GCNGC	5 cut(s)	356, 509, 1002, 1278, 1311
GsaI	CCCAGC	1 cut(s)	641
HaeIII	GGCC	2 cut(s)	247, 279
HapII	CCGG	1 cut(s)	83
HgaI	GACGC	1 cut(s)	1146
Hin1I	GRCGYC	1 cut(s)	1138
Hin1II	CATG	9 cut(s)	56, 232, 455, 625, 721, 948, 1013, 1036, 1298
HindIII	AAGCTT	1 cut(s)	1043
HinfI	GANTC	8 cut(s)	29, 44, 70, 760, 769, 799, 857, 1102
HpaII	CCGG	1 cut(s)	83
HphI	GGTGA	1 cut(s)	173
Hpy166II	GTNNAC	2 cut(s)	149, 595
Hpy188I	TCNGA	4 cut(s)	685, 820, 907, 1269
Hpy188III	TCNNGA	6 cut(s)	83, 116, 141, 301, 554, 1099
Hpy8I	GTNNAC	2 cut(s)	149, 595
HpyAV	CCTTC	5 cut(s)	85, 122, 788, 1030, 1314
HpyCH4III	ACNGT	3 cut(s)	205, 382, 1192
HpyF10VI	GCNNNNNNNGC	4 cut(s)	244, 514, 941, 1010
HpyF3I	CTNAG	7 cut(s)	156, 330, 598, 663, 817, 1195, 1329
Hsp92I	GRCGYC	1 cut(s)	1138
Hsp92II	CATG	9 cut(s)	56, 232, 455, 625, 721, 948, 1013, 1036, 1298
Kpn2I	TCCGGA	1 cut(s)	82
Kzo9I	GATC	2 cut(s)	891, 1300
LmnI	GCTCC	2 cut(s)	137, 932
Lsp1109I	GCAGC	5 cut(s)	367, 495, 988, 1289, 1297
LweI	GCATC	3 cut(s)	723, 944, 1239
MaeI	CTAG	3 cut(s)	251, 725, 1014
MaeIII	GTNAC	2 cut(s)	12, 459
MalI	GATC	2 cut(s)	893, 1302
MboI	GATC	2 cut(s)	891, 1300
MboII	GAAGA	3 cut(s)	523, 739, 821
MfeI	CAATTG	1 cut(s)	987
MflI	RGATCY	2 cut(s)	891, 1300
MlsI	TGGCCA	1 cut(s)	279
MluCI	AATT	6 cut(s)	56, 119, 435, 864, 987, 1231
MluI	ACGCGT	1 cut(s)	463
MluNI	TGGCCA	1 cut(s)	279
MlyI	GAGTC	2 cut(s)	769, 808
MmeI	TCCRAC	2 cut(s)	663, 869
MnlI	CCTC	7 cut(s)	137, 168, 258, 658, 784, 792, 1237
Mox20I	TGGCCA	1 cut(s)	279
MroI	TCCGGA	1 cut(s)	82
MscI	TGGCCA	1 cut(s)	279
MseI	TTAA	6 cut(s)	395, 573, 611, 755, 918, 1239
MslI	CAYNNNNRTG	3 cut(s)	233, 665, 1014
Msp20I	TGGCCA	1 cut(s)	279
MspA1I	CMGCKG	2 cut(s)	358, 641
MspI	CCGG	1 cut(s)	83
MspR9I	CCNGG	1 cut(s)	1323
MunI	CAATTG	1 cut(s)	987
Mva1269I	GAATGC	2 cut(s)	362, 527
MvaI	CCWGG	1 cut(s)	1323
MvnI	CGCG	1 cut(s)	465
MwoI	GCNNNNNNNGC	4 cut(s)	244, 514, 941, 1010
NdeI	CATATG	1 cut(s)	730
NdeII	GATC	2 cut(s)	891, 1300
NlaIII	CATG	9 cut(s)	56, 232, 455, 625, 721, 948, 1013, 1036, 1298
NlaIV	GGNNCC	2 cut(s)	133, 1225
NspI	RCATGY	2 cut(s)	232, 1013
OliI	CACNNNNGTG	1 cut(s)	665
PaeI	GCATGC	1 cut(s)	1013
PctI	GAATGC	2 cut(s)	362, 527
PfeI	GAWTC	6 cut(s)	29, 44, 70, 769, 857, 1102
PkrI	GCNGC	5 cut(s)	357, 510, 1003, 1279, 1312
PleI	GAGTC	2 cut(s)	768, 807
PpsI	GAGTC	2 cut(s)	768, 807
PshBI	ATTAAT	1 cut(s)	611
PsiI	TTATAA	3 cut(s)	9, 875, 1187
Psp6I	CCWGG	1 cut(s)	1321
PspFI	CCCAGC	1 cut(s)	637
PspGI	CCWGG	1 cut(s)	1321
PspN4I	GGNNCC	2 cut(s)	133, 1225
PspPI	GGNCC	2 cut(s)	245, 374
PstI	CTGCAG	3 cut(s)	1006, 1218, 1315
PsuI	RGATCY	2 cut(s)	891, 1300
PvuII	CAGCTG	2 cut(s)	358, 641
RseI	CAYNNNNRTG	3 cut(s)	233, 665, 1014
SaqAI	TTAA	6 cut(s)	395, 573, 611, 755, 918, 1239
SatI	GCNGC	5 cut(s)	356, 509, 1002, 1278, 1311
Sau3AI	GATC	2 cut(s)	891, 1300
Sau96I	GGNCC	2 cut(s)	245, 374
SchI	GAGTC	2 cut(s)	769, 808
ScrFI	CCNGG	1 cut(s)	1323
SfaNI	GCATC	3 cut(s)	723, 944, 1239
SfcI	CTRYAG	6 cut(s)	204, 348, 939, 1002, 1214, 1311
SinI	GGWCC	1 cut(s)	374
SmiMI	CAYNNNNRTG	3 cut(s)	233, 665, 1014
SphI	GCATGC	1 cut(s)	1013
Sse9I	AATT	6 cut(s)	56, 119, 435, 864, 987, 1231
SspI	AATATT	1 cut(s)	911
SspMI	CTAG	3 cut(s)	251, 725, 1014
StyD4I	CCNGG	1 cut(s)	1321
TaaI	ACNGT	3 cut(s)	205, 382, 1192
TaqI	TCGA	1 cut(s)	1079
TasI	AATT	6 cut(s)	56, 119, 435, 864, 987, 1231
TfiI	GAWTC	6 cut(s)	29, 44, 70, 769, 857, 1102
Tru1I	TTAA	6 cut(s)	395, 573, 611, 755, 918, 1239
Tru9I	TTAA	6 cut(s)	395, 573, 611, 755, 918, 1239
TscAI	CASTG	4 cut(s)	280, 450, 541, 667
TseI	GCWGC	5 cut(s)	355, 508, 1001, 1277, 1310
TspDTI	ATGAA	9 cut(s)	57, 69, 104, 822, 951, 1044, 1049, 1283, 1332
TspRI	CASTG	4 cut(s)	280, 450, 541, 667
VpaK11BI	GGWCC	1 cut(s)	374
VspI	ATTAAT	1 cut(s)	611
XapI	RAATTY	1 cut(s)	56
XceI	RCATGY	2 cut(s)	232, 1013
XcmI	CCANNNNNNNNNTGG	2 cut(s)	118, 272
XspI	CTAG	3 cut(s)	251, 725, 1014

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