Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002198

Physical Location & Seq

Genomic Coordinates Reverse (-)

83954985 .. 83958324

Gene Structure 3340 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG493500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1335 bp

ATGAGTTATATGTTACCAGTTGAAATGGAATCAATAGATAATGAATCGATACATGAATTCAAAGATGAGATTCTTTCTATTCCGGAGATGAAGGCTCAAAAGTCGCAACCCATTCAAGAATTGGGGGAAGGGTCCTTTTCAGGAGGTTTACAAGCTAAGGGTGATGATAAAATGTGGAGGAATGTTGTTTGTAGGAGTATAAAGACTGTAGTTTTGTCAAACAAACTCAACATGCTTATGCCTTTTGGGCCTCTAGCAATTTTTGTCCATATATTCACTGGCCATAATGGGTGGGTCTTTTTCTTGACCTTGTTGGGTATAACTCCTTTGGCTGAGCGTTTAGGTTATGCTACAGAGCAGCTGGCATTCTATACTGGACCTACTGTTGGGGGTCTTTTAAATGCTACTTTTGGAAATGCAACAGAACTGATTATATCAATTTATGCACTGAAACATGGAATGTTACGCGTTGTTCAGCAGTCATTATTAGGCTCTATTCTGTCAAATATGCTGCTGGTGCTTGGATGTGCATTCTTCTGTGGTGGGCTTGTTTTTCAAGATAAGGAACAAGTGTTTAACAAGGCAACTGCTGTTGTGAACTCAGGCTTGCTATTAATGGCAGTCATGGGACTACTTTTCCCAGCTGTTCTGCACTACACTCACACTGAGGTGCATTTTGGGAAGTCGGAGTTGGCACTTTCAAGGTTTAGTAGTTGCATCATGCTTCTAGCATATGCCATATATCTTTTCTTCCAGTTAAAGAGTCAAAAGAATCTATATGTTCCTCTACATGAGGAAGGGAGTCAAAATGAAGAGAACTCAGATGATGATGATGAGACACCTGAGATTTCTAAATGGGAATCAATAATTTGGCTTATAATAATGACGAGTTGGATCTCATTCCTATCAGAATATTTAGTTAATGCCATAAAGGGAGCATCTGTAGCATGGAAAATCCCTATTTCATTTATTAGTGTTATCTTGCTCCCAATTGTGGGTAATGCTGCAGAGCATGCTAGTGCTATTATGTTTGCCATGAAGGACAAGCTTGACATTTCATTGGGAGTGGCAATAGGGTCATCGACACAGATATCTATGTTCGGGATTCCTTTTTGTGTAGTTATTGGGTGGATTATGGGACGCCCTATGGACTTGAACTTTCAACTCTTTGAGACAGCCACACTTTTTATAACCGTCTTAGTTGTAGCCTTTTTACTGCAGGATGGAACCTCTAATTACTTTAAAGGGTTGATGCTTATTCTTTGTTATCTGATAGTTGCAGCAAGTTTCTTTGTTCATGTAGATCCTTCGGCTGCAGATGAAGCTGGAACTTAG

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

444

Amino Acids

48.94

Weight (kDa)

5.07

Isoelectric Point (pI)

35.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Na_Ca_ex	PF01699	98 - 253	1.1e-22	Sodium/calcium exchanger protein
Na_Ca_ex	PF01699	288 - 430	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	2 cut(s)	878, 1190
AccII	CGCG	1 cut(s)	468
AccIII	TCCGGA	1 cut(s)	82
AclWI	GGATC	2 cut(s)	902, 1298
AcoI	YGGCCR	1 cut(s)	280
AcsI	RAATTY	1 cut(s)	56
AcyI	GRCGYC	1 cut(s)	1141
AfiI	CCNNNNNNNGG	3 cut(s)	386, 994, 995
AflIII	ACRYGT	1 cut(s)	466
AgsI	TTSAA	7 cut(s)	23, 61, 116, 557, 702, 1156, 1163
AjuI	GAANNNNNNNTTGG	2 cut(s)	674, 706
AleI	CACNNNNGTG	1 cut(s)	668
AluBI	AGCT	5 cut(s)	155, 361, 644, 1048, 1325
AluI	AGCT	5 cut(s)	155, 361, 644, 1048, 1325
Alw26I	GTCTC	2 cut(s)	830, 1166
AlwI	GGATC	2 cut(s)	902, 1298
Aor13HI	TCCGGA	1 cut(s)	82
AoxI	GGCC	2 cut(s)	248, 280
ApeKI	GCWGC	5 cut(s)	358, 511, 1004, 1280, 1313
ApoI	RAATTY	1 cut(s)	56
ArsI	GACNNNNNNTTYG	2 cut(s)	196, 228
AseI	ATTAAT	1 cut(s)	614
AspS9I	GGNCC	3 cut(s)	132, 248, 377
AsuHPI	GGTGA	1 cut(s)	173
AvaII	GGWCC	2 cut(s)	132, 377
BalI	TGGCCA	1 cut(s)	282
BbvI	GCAGC	5 cut(s)	370, 498, 991, 1292, 1300
BccI	CCATC	1 cut(s)	1217
BcoDI	GTCTC	2 cut(s)	830, 1166
BfaI	CTAG	3 cut(s)	254, 728, 1017
BfmI	CTRYAG	6 cut(s)	207, 351, 942, 1005, 1217, 1314
BglI	GCCNNNNNGGC	1 cut(s)	247
BisI	GCNGC	5 cut(s)	359, 512, 1005, 1281, 1314
BlpI	GCTNAGC	1 cut(s)	333
BlsI	GCNGC	5 cut(s)	360, 513, 1006, 1282, 1315
Bme18I	GGWCC	2 cut(s)	132, 377
BmgT120I	GGNCC	3 cut(s)	132, 248, 377
BmiI	GGNNCC	2 cut(s)	133, 1228
BmsI	GCATC	3 cut(s)	726, 947, 1242
Bpu10I	CCTNAGC	1 cut(s)	156
Bpu1102I	GCTNAGC	1 cut(s)	333
Bsa29I	ATCGAT	1 cut(s)	47
BsaHI	GRCGYC	1 cut(s)	1141
BsaWI	WCCGGW	1 cut(s)	82
BsaXI	ACNNNNNCTCC	2 cut(s)	927, 957
Bsc4I	CCNNNNNNNGG	3 cut(s)	386, 994, 995
Bse1I	ACTGG	4 cut(s)	17, 283, 379, 754
BseAI	TCCGGA	1 cut(s)	82
BseCI	ATCGAT	1 cut(s)	47
BseGI	GGATG	2 cut(s)	530, 1228
BseLI	CCNNNNNNNGG	3 cut(s)	386, 994, 995
BseMII	CTCAG	5 cut(s)	324, 615, 657, 834, 834
BseNI	ACTGG	4 cut(s)	17, 283, 379, 754
BseXI	GCAGC	5 cut(s)	370, 498, 991, 1292, 1300
BseYI	CCCAGC	1 cut(s)	640
BsgI	GTGCAG	1 cut(s)	635
Bsh1236I	CGCG	1 cut(s)	468
BshFI	GGCC	2 cut(s)	250, 282
BshVI	ATCGAT	1 cut(s)	47
BsiSI	CCGG	1 cut(s)	83
BslFI	GGGAC	2 cut(s)	642, 1152
BslI	CCNNNNNNNGG	3 cut(s)	386, 994, 995
BsmAI	GTCTC	2 cut(s)	830, 1166
BsmFI	GGGAC	2 cut(s)	642, 1152
BsmI	GAATGC	2 cut(s)	365, 530
BsnI	GGCC	2 cut(s)	250, 282
Bsp13I	TCCGGA	1 cut(s)	82
Bsp143I	GATC	2 cut(s)	894, 1303
Bsp1720I	GCTNAGC	1 cut(s)	333
BspANI	GGCC	2 cut(s)	250, 282
BspCNI	CTCAG	5 cut(s)	325, 614, 658, 833, 835
BspDI	ATCGAT	1 cut(s)	47
BspEI	TCCGGA	1 cut(s)	82
BspFNI	CGCG	1 cut(s)	468
BspLI	GGNNCC	2 cut(s)	133, 1228
BspMAI	CTGCAG	3 cut(s)	1009, 1221, 1318
BspPI	GGATC	2 cut(s)	902, 1298
BsrI	ACTGG	4 cut(s)	17, 283, 379, 754
BssMI	GATC	2 cut(s)	894, 1303
BssNI	GRCGYC	1 cut(s)	1141
Bst4CI	ACNGT	3 cut(s)	208, 385, 1195
Bst6I	CTCTTC	1 cut(s)	807
BstACI	GRCGYC	1 cut(s)	1141
BstAPI	GCANNNNNTGC	1 cut(s)	1013
BstC8I	GCNNGC	3 cut(s)	363, 608, 1014
BstDEI	CTNAG	8 cut(s)	156, 333, 601, 666, 820, 843, 1198, 1332
BstF5I	GGATG	2 cut(s)	530, 1228
BstFNI	CGCG	1 cut(s)	468
BstKTI	GATC	2 cut(s)	897, 1306
BstMAI	GTCTC	2 cut(s)	830, 1166
BstMBI	GATC	2 cut(s)	894, 1303
BstMWI	GCNNNNNNNGC	5 cut(s)	247, 517, 944, 1013, 1322
BstNSI	RCATGY	2 cut(s)	235, 1016
BstSFI	CTRYAG	6 cut(s)	207, 351, 942, 1005, 1217, 1314
BstUI	CGCG	1 cut(s)	468
BstV1I	GCAGC	5 cut(s)	370, 498, 991, 1292, 1300
BstX2I	RGATCY	2 cut(s)	894, 1303
BstYI	RGATCY	2 cut(s)	894, 1303
Bsu15I	ATCGAT	1 cut(s)	47
BsuRI	GGCC	2 cut(s)	250, 282
BsuTUI	ATCGAT	1 cut(s)	47
BtsCI	GGATG	2 cut(s)	530, 1228
BtsIMutI	CAGTG	3 cut(s)	276, 446, 663
Cac8I	GCNNGC	3 cut(s)	363, 608, 1014
Cfr13I	GGNCC	3 cut(s)	132, 248, 377
ClaI	ATCGAT	1 cut(s)	47
CseI	GACGC	1 cut(s)	1149
DdeI	CTNAG	8 cut(s)	156, 333, 601, 666, 820, 843, 1198, 1332
DpnI	GATC	2 cut(s)	896, 1305
DpnII	GATC	2 cut(s)	894, 1303
DraI	TTTAAA	2 cut(s)	399, 1243
EaeI	YGGCCR	1 cut(s)	280
Eam1104I	CTCTTC	1 cut(s)	807
EarI	CTCTTC	1 cut(s)	807
Eco32I	GATATC	1 cut(s)	1092
Eco47I	GGWCC	2 cut(s)	132, 377
EcoO109I	RGGNCCY	1 cut(s)	132
EcoRI	GAATTC	1 cut(s)	56
EcoRV	GATATC	1 cut(s)	1092
FaqI	GGGAC	2 cut(s)	642, 1152
FauNDI	CATATG	1 cut(s)	733
Fnu4HI	GCNGC	5 cut(s)	359, 512, 1005, 1281, 1314
FokI	GGATG	2 cut(s)	537, 1235
Fsp4HI	GCNGC	5 cut(s)	359, 512, 1005, 1281, 1314
FspBI	CTAG	3 cut(s)	254, 728, 1017
GluI	GCNGC	5 cut(s)	359, 512, 1005, 1281, 1314
GsaI	CCCAGC	1 cut(s)	644
HaeIII	GGCC	2 cut(s)	250, 282
HapII	CCGG	1 cut(s)	83
HgaI	GACGC	1 cut(s)	1149
Hin1I	GRCGYC	1 cut(s)	1141
HindIII	AAGCTT	1 cut(s)	1046
HinfI	GANTC	8 cut(s)	29, 44, 70, 763, 772, 802, 860, 1105
HpaII	CCGG	1 cut(s)	83
HphI	GGTGA	1 cut(s)	173
Hpy166II	GTNNAC	2 cut(s)	149, 598
Hpy188I	TCNGA	4 cut(s)	688, 823, 910, 1272
Hpy188III	TCNNGA	6 cut(s)	83, 116, 141, 304, 557, 1102
Hpy8I	GTNNAC	2 cut(s)	149, 598
HpyAV	CCTTC	5 cut(s)	85, 122, 791, 1033, 1317
HpyCH4III	ACNGT	3 cut(s)	208, 385, 1195
HpyF10VI	GCNNNNNNNGC	5 cut(s)	247, 517, 944, 1013, 1322
HpyF3I	CTNAG	8 cut(s)	156, 333, 601, 666, 820, 843, 1198, 1332
Hsp92I	GRCGYC	1 cut(s)	1141
Kpn2I	TCCGGA	1 cut(s)	82
Kzo9I	GATC	2 cut(s)	894, 1303
LmnI	GCTCC	2 cut(s)	935, 990
Lsp1109I	GCAGC	5 cut(s)	370, 498, 991, 1292, 1300
LweI	GCATC	3 cut(s)	726, 947, 1242
MaeI	CTAG	3 cut(s)	254, 728, 1017
MaeIII	GTNAC	2 cut(s)	12, 462
MalI	GATC	2 cut(s)	896, 1305
MboI	GATC	2 cut(s)	894, 1303
MboII	GAAGA	3 cut(s)	526, 742, 824
MfeI	CAATTG	1 cut(s)	990
MflI	RGATCY	2 cut(s)	894, 1303
MlsI	TGGCCA	1 cut(s)	282
MluCI	AATT	7 cut(s)	56, 119, 258, 438, 867, 990, 1234
MluI	ACGCGT	1 cut(s)	466
MluNI	TGGCCA	1 cut(s)	282
MlyI	GAGTC	2 cut(s)	772, 811
MmeI	TCCRAC	2 cut(s)	666, 872
MnlI	CCTC	7 cut(s)	137, 171, 261, 661, 787, 795, 1240
Mox20I	TGGCCA	1 cut(s)	282
MroI	TCCGGA	1 cut(s)	82
MscI	TGGCCA	1 cut(s)	282
MseI	TTAA	6 cut(s)	398, 576, 614, 758, 921, 1242
MslI	CAYNNNNRTG	3 cut(s)	236, 668, 1017
Msp20I	TGGCCA	1 cut(s)	282
MspA1I	CMGCKG	2 cut(s)	361, 644
MspI	CCGG	1 cut(s)	83
MunI	CAATTG	1 cut(s)	990
Mva1269I	GAATGC	2 cut(s)	365, 530
MvnI	CGCG	1 cut(s)	468
MwoI	GCNNNNNNNGC	5 cut(s)	247, 517, 944, 1013, 1322
NdeI	CATATG	1 cut(s)	733
NdeII	GATC	2 cut(s)	894, 1303
NlaIV	GGNNCC	2 cut(s)	133, 1228
NspI	RCATGY	2 cut(s)	235, 1016
OliI	CACNNNNGTG	1 cut(s)	668
PaeI	GCATGC	1 cut(s)	1016
PctI	GAATGC	2 cut(s)	365, 530
PfeI	GAWTC	6 cut(s)	29, 44, 70, 772, 860, 1105
PkrI	GCNGC	5 cut(s)	360, 513, 1006, 1282, 1315
PleI	GAGTC	2 cut(s)	771, 810
PpsI	GAGTC	2 cut(s)	771, 810
PpuMI	RGGWCCY	1 cut(s)	132
PshBI	ATTAAT	1 cut(s)	614
PsiI	TTATAA	2 cut(s)	878, 1190
Psp5II	RGGWCCY	1 cut(s)	132
PspFI	CCCAGC	1 cut(s)	640
PspN4I	GGNNCC	2 cut(s)	133, 1228
PspPI	GGNCC	3 cut(s)	132, 248, 377
PspPPI	RGGWCCY	1 cut(s)	132
PstI	CTGCAG	3 cut(s)	1009, 1221, 1318
PsuI	RGATCY	2 cut(s)	894, 1303
PvuII	CAGCTG	2 cut(s)	361, 644
RseI	CAYNNNNRTG	3 cut(s)	236, 668, 1017
SaqAI	TTAA	6 cut(s)	398, 576, 614, 758, 921, 1242
SatI	GCNGC	5 cut(s)	359, 512, 1005, 1281, 1314
Sau3AI	GATC	2 cut(s)	894, 1303
Sau96I	GGNCC	3 cut(s)	132, 248, 377
SchI	GAGTC	2 cut(s)	772, 811
SfaNI	GCATC	3 cut(s)	726, 947, 1242
SfcI	CTRYAG	6 cut(s)	207, 351, 942, 1005, 1217, 1314
SinI	GGWCC	2 cut(s)	132, 377
SmiMI	CAYNNNNRTG	3 cut(s)	236, 668, 1017
SphI	GCATGC	1 cut(s)	1016
Sse9I	AATT	7 cut(s)	56, 119, 258, 438, 867, 990, 1234
SspI	AATATT	1 cut(s)	914
SspMI	CTAG	3 cut(s)	254, 728, 1017
TaaI	ACNGT	3 cut(s)	208, 385, 1195
TaqI	TCGA	2 cut(s)	47, 1082
TasI	AATT	7 cut(s)	56, 119, 258, 438, 867, 990, 1234
TfiI	GAWTC	6 cut(s)	29, 44, 70, 772, 860, 1105
Tru1I	TTAA	6 cut(s)	398, 576, 614, 758, 921, 1242
Tru9I	TTAA	6 cut(s)	398, 576, 614, 758, 921, 1242
TscAI	CASTG	3 cut(s)	283, 453, 670
TseI	GCWGC	5 cut(s)	358, 511, 1004, 1280, 1313
TspDTI	ATGAA	9 cut(s)	57, 69, 104, 825, 954, 1047, 1052, 1286, 1335
TspRI	CASTG	3 cut(s)	283, 453, 670
VpaK11BI	GGWCC	2 cut(s)	132, 377
VspI	ATTAAT	1 cut(s)	614
XapI	RAATTY	1 cut(s)	56
XceI	RCATGY	2 cut(s)	235, 1016
XcmI	CCANNNNNNNNNTGG	2 cut(s)	118, 275
XspI	CTAG	3 cut(s)	254, 728, 1017

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