Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002917

Physical Location & Seq

Genomic Coordinates Forward (+)

10674218 .. 10677623

Gene Structure 3406 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG125800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1041 bp

ATGCCACTAGCAGAACGAGTTAGTTTCCTCACAGAACAGATTGCTTTTTTCACCGGTCCAACAGTGGGAGGGCTTCTTAACGCGACATGTGGCAACGCCACCGAGCTGATTATAGCTATCTTTGCTCTGAGCCAACACAAAATCACAGTAGTGAAGTACTCCCTTTTGGGATCGATACTCTCCAACCTTCTGTTGGTCCTCGGCACCTCCCTCTTCTGCGGTGGCATTGCTAACCTCAGAAGGGAACAAAAATATGACAGAAGACAAGCTGACGTGAACTCATTGATGCTGCTGCTGGCGCTGCTGTGTCACTTGCTGCCACTGCTCTTCACTTTCGCCGCAGGAGAGTCCGTTGCTACCGCAGACCCCACGCTCCATCTGTCGAGAGCTAGCAGCATTATCATGCTGATTGCTTACGCTGCCTACATTGTCTTCCAGCTCTGGACTCACCGCGAGTTATTTGAAGCTCAGGAATCGGATGATGATGATGCTGCCGAGGAAGAAGCGGCTGTAATTGGATTCTGGAGTGGTTTTGTGTGGCTGGTTGGAATGACTGGAGTCATAGCTTTGTTGTCTGAGTATATAGTGGGAACAATTGAGGAAGCATCCGATTCTTGGGGGTTGTCTGTGAGCTTCATCAGCATAATCCTGCTACCTATTGTTGGCAATGCAGCAGAACATGCAGGAGCTGTCATTTTTGCTTTCAAGAACAAGCTGGATATAACTCTTGGTGTTGCATTGGGTTCTGCAACTCAAATTGCCATGTTTGTGGTTCCATTTTGTGTCATTGTAGCTTGGATTATGGGTATTAACATGGATCTCAATTTCAGTCTCCTTGAGACTGGCTCTCTTGCTTTATCAATCCTAGCCACAGCCTTCACATTGCAGGATGGTACTTCTCACTACCTGAAAGGACTGATTCTTCTGCTGTGCTACATTATTATTGGAGCCTGTTTTTTTGTATCTCAAGCTCCACTTAATGGACCAAACAGTGTCAATCTGAGACTTAAAACTACAGCTGGATCAGTCTTTGGAGCTTAA

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:0006793 GO:0006810 GO:0006811 GO:0006812 GO:0006816 GO:0006873 GO:0006874 GO:0006875 GO:0006882 GO:0007275 GO:0008150 GO:0008152 GO:0008324 GO:0009605 GO:0009607 GO:0009624 GO:0009705 GO:0009719 GO:0009725 GO:0009733 GO:0009987 GO:0010033 GO:0010035 GO:0010038 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:0019725 GO:0022622 GO:0022804 GO:0022857 GO:0022890 GO:0030001 GO:0030003 GO:0030026 GO:0031090 GO:0032501 GO:0032502 GO:0034220 GO:0042221 GO:0042592 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046873 GO:0046916 GO:0048364 GO:0048731 GO:0048856 GO:0048878 GO:0050801 GO:0050896 GO:0051139 GO:0051179 GO:0051234 GO:0051592 GO:0051704 GO:0051707 GO:0055062 GO:0055065 GO:0055069 GO:0055071 GO:0055074 GO:0055076 GO:0055080 GO:0055081 GO:0055082 GO:0055083 GO:0055085 GO:0065007 GO:0065008 GO:0070588 GO:0070838 GO:0072503 GO:0072505 GO:0072506 GO:0072507 GO:0072511 GO:0098588 GO:0098655 GO:0098660 GO:0098662 GO:0098771 GO:0098805 GO:0099402 GO:0099516 GO:1902600

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Na_Ca_ex

Protein Analysis

346

Amino Acids

37.06

Weight (kDa)

4.82

Isoelectric Point (pI)

32.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Na_Ca_ex	PF01699	3 - 148	1.8e-20	Sodium/calcium exchanger protein
Na_Ca_ex	PF01699	177 - 315	1.5e-18	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: OG0002917)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38170 AT2G38170 AT2G38170 AT3G51860 AT3G51860
fragaria_vesca	FvH4_3g38530 FvH4_6g11493
malus_domestica	MD03G1070900.v1.1 MD04G1151600.v1.1 MD11G1074900.v1.1 MD12G1165800.v1.1
prunus_persica	Prupe.6G057700_v2.0.a1 Prupe.6G276800_v2.0.a1 Prupe.6G276800_v2.0.a1
pyrus_communis	pycom03g05720 pycom04g13770
rosa_chinensis	RchiOBHm_Chr3g0463191 RchiOBHm_Chr5g0069431
rosa_laevigata	RLG00000024804 RLG00000036052
rosa_multiflora	Rmu_sc0002658.1_g000024 Rmu_sc0022743.1_g000001
rosa_roxburghii	Rroxscaffold_1G00011530 Rroxscaffold_6G00416820
rosa_rugosa	Rorug03G0062200.1 Rorug03G0062300 Rorug03G0062300 Rorug05G0397500
rosa_samantha	Rh3AG120400 Rh3BG124800 Rh3CG126900 Rh3DG125800 Rh5AG454800 Rh5BG473600 Rh5CG496100 Rh5DG485600
rosa_wichuraiana	Rw3G010220 Rw5G042420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	203
AccB7I	CCANNNNNTGG	1 cut(s)	980
AccII	CGCG	2 cut(s)	83, 453
AciI	CCGC	5 cut(s)	219, 339, 360, 451, 506
AclWI	GGATC	3 cut(s)	178, 825, 1030
AfaI	GTAC	2 cut(s)	158, 895
AfiI	CCNNNNNNNGG	6 cut(s)	65, 193, 241, 615, 662, 980
AflIII	ACRYGT	1 cut(s)	86
AgeI	ACCGGT	1 cut(s)	53
AgsI	TTSAA	2 cut(s)	464, 706
AjiI	CACGTC	1 cut(s)	274
AleI	CACNNNNGTG	1 cut(s)	149
Alw26I	GTCTC	3 cut(s)	833, 836, 997
AlwI	GGATC	3 cut(s)	178, 825, 1030
AlwNI	CAGNNNCTG	1 cut(s)	689
ApeKI	GCWGC	8 cut(s)	289, 292, 301, 316, 393, 419, 491, 671
AsiGI	ACCGGT	1 cut(s)	53
AspLEI	GCGC	1 cut(s)	301
AspS9I	GGNCC	3 cut(s)	56, 196, 983
AsuHPI	GGTGA	2 cut(s)	43, 440
AsuNHI	GCTAGC	1 cut(s)	389
AvaII	GGWCC	3 cut(s)	56, 196, 983
BanI	GGYRCC	1 cut(s)	203
BbsI	GAAGAC	2 cut(s)	268, 424
BbvI	GCAGC	8 cut(s)	276, 279, 288, 303, 405, 406, 478, 683
BccI	CCATC	2 cut(s)	384, 884
BcoDI	GTCTC	3 cut(s)	833, 836, 997
BfaI	CTAG	3 cut(s)	8, 390, 866
BfmI	CTRYAG	1 cut(s)	1014
BfoI	RGCGCY	1 cut(s)	302
BmcAI	AGTACT	1 cut(s)	158
Bme18I	GGWCC	3 cut(s)	56, 196, 983
BmgBI	CACGTC	1 cut(s)	274
BmgT120I	GGNCC	3 cut(s)	56, 196, 983
BmiI	GGNNCC	3 cut(s)	205, 774, 949
BmsI	GCATC	3 cut(s)	276, 478, 614
BmtI	GCTAGC	1 cut(s)	393
BoxI	GACNNNNGTC	1 cut(s)	557
BpiI	GAAGAC	2 cut(s)	268, 424
BplI	GAGNNNNNCTC	2 cut(s)	830, 862
BpmI	CTGGAG	2 cut(s)	544, 576
Bpu10I	CCTNAGC	1 cut(s)	468
BpuEI	CTTGAG	2 cut(s)	857, 951
Bsa29I	ATCGAT	1 cut(s)	173
BsaJI	CCNNGG	2 cut(s)	199, 495
BsaWI	WCCGGW	1 cut(s)	53
BsaXI	ACNNNNNCTCC	2 cut(s)	336, 366
Bsc4I	CCNNNNNNNGG	6 cut(s)	65, 193, 241, 615, 662, 980
Bse118I	RCCGGY	1 cut(s)	53
Bse1I	ACTGG	2 cut(s)	559, 847
Bse3DI	GCAATG	3 cut(s)	225, 673, 881
BseCI	ATCGAT	1 cut(s)	173
BseDI	CCNNGG	2 cut(s)	199, 495
BseGI	GGATG	3 cut(s)	484, 605, 895
BseLI	CCNNNNNNNGG	6 cut(s)	65, 193, 241, 615, 662, 980
BseMI	GCAATG	3 cut(s)	225, 673, 881
BseMII	CTCAG	5 cut(s)	119, 250, 482, 567, 992
BseNI	ACTGG	2 cut(s)	559, 847
BseXI	GCAGC	8 cut(s)	276, 279, 288, 303, 405, 406, 478, 683
Bsh1236I	CGCG	2 cut(s)	83, 453
BshNI	GGYRCC	1 cut(s)	203
BshTI	ACCGGT	1 cut(s)	53
BshVI	ATCGAT	1 cut(s)	173
BsiSI	CCGG	1 cut(s)	54
BslI	CCNNNNNNNGG	6 cut(s)	65, 193, 241, 615, 662, 980
BsmAI	GTCTC	3 cut(s)	833, 836, 997
Bsp143I	GATC	3 cut(s)	170, 817, 1022
BspACI	CCGC	5 cut(s)	219, 339, 360, 451, 506
BspCNI	CTCAG	5 cut(s)	120, 249, 481, 568, 993
BspDI	ATCGAT	1 cut(s)	173
BspFNI	CGCG	2 cut(s)	83, 453
BspLI	GGNNCC	3 cut(s)	205, 774, 949
BspOI	GCTAGC	1 cut(s)	393
BspPI	GGATC	3 cut(s)	178, 825, 1030
BspQI	GCTCTTC	1 cut(s)	332
BspT107I	GGYRCC	1 cut(s)	203
BsrDI	GCAATG	3 cut(s)	225, 673, 881
BsrFI	RCCGGY	1 cut(s)	53
BsrI	ACTGG	2 cut(s)	559, 847
BssAI	RCCGGY	1 cut(s)	53
BssECI	CCNNGG	2 cut(s)	199, 495
BssMI	GATC	3 cut(s)	170, 817, 1022
Bst4CI	ACNGT	3 cut(s)	64, 148, 992
Bst6I	CTCTTC	2 cut(s)	218, 332
BstAPI	GCANNNNNTGC	1 cut(s)	680
BstC8I	GCNNGC	2 cut(s)	297, 391
BstDEI	CTNAG	5 cut(s)	128, 236, 468, 576, 1001
BstF5I	GGATG	3 cut(s)	484, 605, 895
BstFNI	CGCG	2 cut(s)	83, 453
BstH2I	RGCGCY	1 cut(s)	302
BstHHI	GCGC	1 cut(s)	301
BstKTI	GATC	3 cut(s)	173, 820, 1025
BstMAI	GTCTC	3 cut(s)	833, 836, 997
BstMBI	GATC	3 cut(s)	170, 817, 1022
BstMWI	GCNNNNNNNGC	7 cut(s)	122, 298, 301, 322, 419, 639, 680
BstNSI	RCATGY	2 cut(s)	90, 683
BstPAI	GACNNNNGTC	1 cut(s)	557
BstSFI	CTRYAG	1 cut(s)	1014
BstUI	CGCG	2 cut(s)	83, 453
BstV1I	GCAGC	8 cut(s)	276, 279, 288, 303, 405, 406, 478, 683
BstV2I	GAAGAC	2 cut(s)	268, 424
BstX2I	RGATCY	1 cut(s)	817
BstXI	CCANNNNNNTGG	1 cut(s)	769
BstYI	RGATCY	1 cut(s)	817
Bsu15I	ATCGAT	1 cut(s)	173
BsuTUI	ATCGAT	1 cut(s)	173
BtrI	CACGTC	1 cut(s)	274
BtsCI	GGATG	3 cut(s)	484, 605, 895
BtsI	GCAGTG	1 cut(s)	320
BtsIMutI	CAGTG	3 cut(s)	69, 320, 997
Cac8I	GCNNGC	2 cut(s)	297, 391
CaiI	CAGNNNCTG	1 cut(s)	689
CfoI	GCGC	1 cut(s)	301
Cfr10I	RCCGGY	1 cut(s)	53
Cfr13I	GGNCC	3 cut(s)	56, 196, 983
ClaI	ATCGAT	1 cut(s)	173
Csp6I	GTAC	2 cut(s)	157, 894
CspAI	ACCGGT	1 cut(s)	53
CviAII	CATG	5 cut(s)	87, 403, 680, 763, 814
CviQI	GTAC	2 cut(s)	157, 894
DdeI	CTNAG	5 cut(s)	128, 236, 468, 576, 1001
DpnI	GATC	3 cut(s)	172, 819, 1024
DpnII	GATC	3 cut(s)	170, 817, 1022
Eam1104I	CTCTTC	2 cut(s)	218, 332
EarI	CTCTTC	2 cut(s)	218, 332
Eco47I	GGWCC	3 cut(s)	56, 196, 983
FaeI	CATG	5 cut(s)	90, 406, 683, 766, 817
FalI	AAGNNNNNCTT	2 cut(s)	960, 992
FatI	CATG	5 cut(s)	86, 402, 679, 762, 813
FokI	GGATG	3 cut(s)	491, 592, 902
FspBI	CTAG	3 cut(s)	8, 390, 866
GlaI	GCGC	1 cut(s)	300
GsuI	CTGGAG	2 cut(s)	544, 576
HaeII	RGCGCY	1 cut(s)	302
HapII	CCGG	1 cut(s)	54
HhaI	GCGC	1 cut(s)	301
Hin1II	CATG	5 cut(s)	90, 406, 683, 766, 817
Hin6I	GCGC	1 cut(s)	299
HinP1I	GCGC	1 cut(s)	299
HinfI	GANTC	7 cut(s)	347, 445, 473, 519, 558, 611, 919
HpaII	CCGG	1 cut(s)	54
HphI	GGTGA	2 cut(s)	43, 440
Hpy166II	GTNNAC	1 cut(s)	277
Hpy188I	TCNGA	6 cut(s)	129, 239, 478, 577, 610, 1002
Hpy188III	TCNNGA	5 cut(s)	384, 442, 470, 523, 706
Hpy8I	GTNNAC	1 cut(s)	277
HpyAV	CCTTC	3 cut(s)	197, 234, 886
HpyCH4III	ACNGT	3 cut(s)	64, 148, 992
HpyCH4IV	ACGT	1 cut(s)	273
HpyCH4V	TGCA	5 cut(s)	671, 683, 737, 749, 886
HpyF10VI	GCNNNNNNNGC	7 cut(s)	122, 298, 301, 322, 419, 639, 680
HpyF3I	CTNAG	5 cut(s)	128, 236, 468, 576, 1001
HpySE526I	ACGT	1 cut(s)	273
Hsp92II	CATG	5 cut(s)	90, 406, 683, 766, 817
HspAI	GCGC	1 cut(s)	299
Kzo9I	GATC	3 cut(s)	170, 817, 1022
LguI	GCTCTTC	1 cut(s)	332
LmnI	GCTCC	5 cut(s)	378, 686, 947, 976, 1034
Lsp1109I	GCAGC	8 cut(s)	276, 279, 288, 303, 405, 406, 478, 683
LweI	GCATC	3 cut(s)	276, 478, 614
MaeI	CTAG	3 cut(s)	8, 390, 866
MaeII	ACGT	1 cut(s)	273
MaeIII	GTNAC	1 cut(s)	308
MalI	GATC	3 cut(s)	172, 819, 1024
MboI	GATC	3 cut(s)	170, 817, 1022
MboII	GAAGA	6 cut(s)	205, 273, 319, 424, 512, 914
MfeI	CAATTG	1 cut(s)	594
MflI	RGATCY	1 cut(s)	817
MluCI	AATT	4 cut(s)	513, 594, 756, 823
MlyI	GAGTC	3 cut(s)	356, 439, 567
MmeI	TCCRAC	3 cut(s)	83, 207, 526
MnlI	CCTC	8 cut(s)	38, 62, 209, 217, 221, 245, 490, 592
MseI	TTAA	5 cut(s)	78, 810, 978, 1008, 1039
MslI	CAYNNNNRTG	3 cut(s)	149, 401, 767
MspA1I	CMGCKG	1 cut(s)	1019
MspI	CCGG	1 cut(s)	54
MunI	CAATTG	1 cut(s)	594
MvnI	CGCG	2 cut(s)	83, 453
MwoI	GCNNNNNNNGC	7 cut(s)	122, 298, 301, 322, 419, 639, 680
NdeII	GATC	3 cut(s)	170, 817, 1022
NheI	GCTAGC	1 cut(s)	389
NlaIII	CATG	5 cut(s)	90, 406, 683, 766, 817
NlaIV	GGNNCC	3 cut(s)	205, 774, 949
NmeAIII	GCCGAG	2 cut(s)	180, 520
NmuCI	GTSAC	1 cut(s)	308
NspI	RCATGY	2 cut(s)	90, 683
OliI	CACNNNNGTG	1 cut(s)	149
PciI	ACATGT	1 cut(s)	86
PciSI	GCTCTTC	1 cut(s)	332
PfeI	GAWTC	4 cut(s)	473, 519, 611, 919
PflMI	CCANNNNNTGG	1 cut(s)	980
PinAI	ACCGGT	1 cut(s)	53
PleI	GAGTC	3 cut(s)	355, 439, 566
PpsI	GAGTC	3 cut(s)	355, 439, 566
PscI	ACATGT	1 cut(s)	86
PshAI	GACNNNNGTC	1 cut(s)	557
PspN4I	GGNNCC	3 cut(s)	205, 774, 949
PspPI	GGNCC	3 cut(s)	56, 196, 983
PstNI	CAGNNNCTG	1 cut(s)	689
PsuI	RGATCY	1 cut(s)	817
PvuII	CAGCTG	1 cut(s)	1019
RsaI	GTAC	2 cut(s)	158, 895
RsaNI	GTAC	2 cut(s)	157, 894
RseI	CAYNNNNRTG	3 cut(s)	149, 401, 767
SapI	GCTCTTC	1 cut(s)	332
SaqAI	TTAA	5 cut(s)	78, 810, 978, 1008, 1039
Sau3AI	GATC	3 cut(s)	170, 817, 1022
Sau96I	GGNCC	3 cut(s)	56, 196, 983
ScaI	AGTACT	1 cut(s)	158
SchI	GAGTC	3 cut(s)	356, 439, 567
SfaNI	GCATC	3 cut(s)	276, 478, 614
SfcI	CTRYAG	1 cut(s)	1014
SinI	GGWCC	3 cut(s)	56, 196, 983
SmiMI	CAYNNNNRTG	3 cut(s)	149, 401, 767
SmlI	CTYRAG	2 cut(s)	836, 966
SmoI	CTYRAG	2 cut(s)	836, 966
Sse9I	AATT	4 cut(s)	513, 594, 756, 823
SsiI	CCGC	5 cut(s)	219, 339, 360, 451, 506
SspMI	CTAG	3 cut(s)	8, 390, 866
TaaI	ACNGT	3 cut(s)	64, 148, 992
TaiI	ACGT	1 cut(s)	276
TaqI	TCGA	2 cut(s)	173, 383
TasI	AATT	4 cut(s)	513, 594, 756, 823
TatI	WGTACW	1 cut(s)	156
TauI	GCSGC	2 cut(s)	341, 509
TfiI	GAWTC	4 cut(s)	473, 519, 611, 919
Tru1I	TTAA	5 cut(s)	78, 810, 978, 1008, 1039
Tru9I	TTAA	5 cut(s)	78, 810, 978, 1008, 1039
TscAI	CASTG	3 cut(s)	69, 327, 997
TseFI	GTSAC	1 cut(s)	308
TseI	GCWGC	8 cut(s)	289, 292, 301, 316, 393, 419, 491, 671
Tsp45I	GTSAC	1 cut(s)	308
TspDTI	ATGAA	1 cut(s)	625
TspGWI	ACGGA	1 cut(s)	340
TspRI	CASTG	3 cut(s)	69, 327, 997
Van91I	CCANNNNNTGG	1 cut(s)	980
VpaK11BI	GGWCC	3 cut(s)	56, 196, 983
XceI	RCATGY	2 cut(s)	90, 683
XcmI	CCANNNNNNNNNTGG	1 cut(s)	190
XspI	CTAG	3 cut(s)	8, 390, 866
ZrmI	AGTACT	1 cut(s)	158

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