Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0000953

Physical Location & Seq

Genomic Coordinates Forward (+)

1154326 .. 1155162

Gene Structure 837 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG018300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGAATATCCTGCCTCTGCTTTTCTTGCTTGTAATTGTGTTCCCCAGTATTGTTAAACCAATTAGCAAAGCAGCCGATGATCAGGCCTGCCCAGTTCAAAGGTGTAGGCATGATGGTCCCCTTATCCAGTTTCCATTCCGTCTACAACACTATCCCCTTCACTGTGGCCATCCAAAGTTTGAGGTTTCCTGCAGCAGCTTCACCAACATGACCATGATAAAGCTTTCCTCATCATCAGGATTCTTTCTAATACAAACAATCGATTACGAGAGACAACAATTTCGTGTGTATGATGAGGAAGGTTGCCTCCCGAGCCGCCTTCTTAATTTTACTCTCCCCTGCTCGCTCTTTCAACCACCAGAAATGTTTTACGACTTTTTCCAAATGGACTACTGCGCTTCCTTTTACGGGGACAAAAACAACGTGACGTTGTTAAACTGTACCCAAGCACAAAATCTGAGCGCATCCACCACCATAACGATCAAATGTCTCAGTGTCCCAGGGCATTATCAAATTCTGGCTGTTGTCAAGTATTTTACTTTGTCTGACTTGCCGGTAGGCAGTCATTGCTATACTTTACCAGAAATCTTTCTTCCACTTCGAAACATACATGATTATAGGTGTGAACTCGACACTGGTTTATTGCTGCAATGGAGTGGATCGGATTTCCCAGAATGTCAAAACTGTAGAGGAAGCTGCTATTTCAATTACAGCAGCAATCAAGTCTTGAAGTGTTATCCTCGAAAACACAAAGGTACGTGCCTAGTGAGCTTTCAACGAAATATGGCACTAGAAAATACGATTAGAAAGTATCGTCTACTAGTTCACCTTTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005623 GO:0005886 GO:0005887 GO:0006810 GO:0006811 GO:0006812 GO:0008150 GO:0008324 GO:0008519 GO:0009605 GO:0009607 GO:0009624 GO:0015075 GO:0015695 GO:0015696 GO:0015837 GO:0015843 GO:0016020 GO:0016021 GO:0019755 GO:0022857 GO:0031224 GO:0031226 GO:0034220 GO:0043207 GO:0044425 GO:0044459 GO:0044464 GO:0050896 GO:0051179 GO:0051234 GO:0051704 GO:0051707 GO:0055085 GO:0071702 GO:0071705 GO:0071944 GO:0072488 GO:0098655

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

Ammonium_transp

Protein Analysis

278

Amino Acids

32.08

Weight (kDa)

8.11

Isoelectric Point (pI)

47.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GUB_WAK_bind	PF13947	30 - 98	1.3e-14	Wall-associated receptor kinase galacturonan-binding

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: OG0000953)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g01480 FvH4_6g01500 FvH4_6g01501
malus_domestica	MD04G1233200.v1.1 MD12G1250800.v1.1 MD12G1251200.v1.1
prunus_persica	Prupe.6G352900_v2.0.a1 Prupe.6G352900_v2.0.a1
pyrus_communis	pycom04g20660 pycom04g20720 pycom12g23110
rosa_chinensis	RchiOBHm_Chr3g0449111 RchiOBHm_Chr3g0449121 RchiOBHm_Chr3g0449341 RchiOBHm_Chr3g0449371 RchiOBHm_Chr3g0449391 RchiOBHm_Chr7g0209911
rosa_laevigata	RLG00000025835 RLG00000025837 RLG00000025851 RLG00000025852
rosa_multiflora	Rmu_sc0001234.1_g000001 Rmu_sc0001234.1_g000005 Rmu_sc0001234.1_g000007 Rmu_sc0001234.1_g000011 Rmu_sc0003776.1_g000032 Rmu_sc0004874.1_g000012 Rmu_sc0004874.1_g000015 Rmu_sc0006661.1_g000002 Rmu_sc0006661.1_g000003 Rmu_sc0006661.1_g000005 Rmu_sc0017357.1_g000001 Rmu_sc0028145.1_g000001 Rmu_sc0032682.1_g000001 Rmu_ssc0000423.1_g000002
rosa_roxburghii	Rroxscaffold_3G00248810 Rroxscaffold_6G00427210 Rroxscaffold_6G00427350
rosa_rugosa	Rorug02G0618000 Rorug02G0618300 Rorug02G0618400.1 Rorug02G0619900 Rorug02G0620300 Rorug06G0099800 Rorug06G0099800 Rorug07G0117300
rosa_samantha	Rh3AG017800 Rh3AG018000 Rh3BG016800 Rh3BG018100 Rh3BG018300 Rh3CG015900 Rh3CG017000 Rh3CG017200 Rh3DG017100 Rh3DG018300 Rh3DG018700 Rh7BG245800
rosa_wichuraiana	Rw3G001250 Rw3G001380 Rw3G001410 Rw3G001420 Rw3G001440 Rw7G021310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	142, 817
AciI	CCGC	1 cut(s)	316
AclWI	GGATC	1 cut(s)	667
AcoI	YGGCCR	1 cut(s)	166
AcsI	RAATTY	1 cut(s)	513
AfaI	GTAC	2 cut(s)	442, 757
AfiI	CCNNNNNNNGG	1 cut(s)	408
AgsI	TTSAA	5 cut(s)	98, 353, 706, 730, 776
AhlI	ACTAGT	1 cut(s)	820
AjnI	CCWGG	1 cut(s)	499
AluBI	AGCT	4 cut(s)	198, 223, 696, 771
AluI	AGCT	4 cut(s)	198, 223, 696, 771
Alw26I	GTCTC	2 cut(s)	265, 494
AlwI	GGATC	1 cut(s)	667
Ama87I	CYCGRG	1 cut(s)	310
AoxI	GGCC	2 cut(s)	84, 166
ApeKI	GCWGC	6 cut(s)	71, 192, 195, 646, 696, 714
ApoI	RAATTY	1 cut(s)	513
ArsI	GACNNNNNNTTYG	2 cut(s)	264, 296
Asp700I	GAANNNNTTC	1 cut(s)	588
AspLEI	GCGC	2 cut(s)	398, 464
AspS9I	GGNCC	1 cut(s)	116
AsuHPI	GGTGA	2 cut(s)	193, 818
AsuII	TTCGAA	1 cut(s)	601
AvaI	CYCGRG	1 cut(s)	310
AvaII	GGWCC	1 cut(s)	116
BalI	TGGCCA	1 cut(s)	168
BbvI	GCAGC	6 cut(s)	83, 204, 207, 633, 683, 726
BccI	CCATC	2 cut(s)	107, 177
BciT130I	CCWGG	1 cut(s)	501
BclI	TGATCA	1 cut(s)	79
BcoDI	GTCTC	2 cut(s)	265, 494
BcuI	ACTAGT	1 cut(s)	820
BfaI	CTAG	3 cut(s)	764, 791, 821
BfmI	CTRYAG	2 cut(s)	190, 685
BisI	GCNGC	7 cut(s)	72, 193, 196, 316, 647, 697, 715
BlsI	GCNGC	7 cut(s)	73, 194, 197, 317, 648, 698, 716
Bme1390I	CCNGG	1 cut(s)	501
Bme18I	GGWCC	1 cut(s)	116
BmeT110I	CYCGRG	1 cut(s)	310
BmgT120I	GGNCC	1 cut(s)	116
BmiI	GGNNCC	1 cut(s)	118
BmrFI	CCNGG	1 cut(s)	501
BmrI	ACTGGG	2 cut(s)	39, 86
BmsI	GCATC	1 cut(s)	473
BmuI	ACTGGG	2 cut(s)	39, 86
Bpu14I	TTCGAA	1 cut(s)	601
Bsa29I	ATCGAT	1 cut(s)	261
BsaAI	YACGTR	1 cut(s)	759
BsaJI	CCNNGG	2 cut(s)	499, 500
Bsc4I	CCNNNNNNNGG	1 cut(s)	408
Bse118I	RCCGGY	1 cut(s)	553
Bse1I	ACTGG	4 cut(s)	45, 92, 127, 640
Bse3DI	GCAATG	2 cut(s)	565, 656
BseBI	CCWGG	1 cut(s)	501
BseCI	ATCGAT	1 cut(s)	261
BseDI	CCNNGG	2 cut(s)	499, 500
BseGI	GGATG	2 cut(s)	169, 464
BseLI	CCNNNNNNNGG	1 cut(s)	408
BseMI	GCAATG	2 cut(s)	565, 656
BseMII	CTCAG	2 cut(s)	449, 505
BseNI	ACTGG	4 cut(s)	45, 92, 127, 640
BseXI	GCAGC	6 cut(s)	83, 204, 207, 633, 683, 726
BshFI	GGCC	2 cut(s)	86, 168
BshVI	ATCGAT	1 cut(s)	261
BsiHKCI	CYCGRG	1 cut(s)	310
BsiSI	CCGG	1 cut(s)	554
BslFI	GGGAC	3 cut(s)	102, 425, 482
BslI	CCNNNNNNNGG	1 cut(s)	408
BsmAI	GTCTC	2 cut(s)	265, 494
BsmFI	GGGAC	3 cut(s)	102, 425, 482
BsnI	GGCC	2 cut(s)	86, 168
BsoBI	CYCGRG	1 cut(s)	310
Bsp119I	TTCGAA	1 cut(s)	601
Bsp143I	GATC	3 cut(s)	79, 480, 659
BspACI	CCGC	1 cut(s)	316
BspANI	GGCC	2 cut(s)	86, 168
BspCNI	CTCAG	2 cut(s)	450, 504
BspDI	ATCGAT	1 cut(s)	261
BspLI	GGNNCC	1 cut(s)	118
BspMAI	CTGCAG	1 cut(s)	194
BspPI	GGATC	1 cut(s)	667
BspT104I	TTCGAA	1 cut(s)	601
BsrDI	GCAATG	2 cut(s)	565, 656
BsrFI	RCCGGY	1 cut(s)	553
BsrI	ACTGG	4 cut(s)	45, 92, 127, 640
BssAI	RCCGGY	1 cut(s)	553
BssECI	CCNNGG	2 cut(s)	499, 500
BssMI	GATC	3 cut(s)	79, 480, 659
Bst2UI	CCWGG	1 cut(s)	501
Bst4CI	ACNGT	3 cut(s)	164, 440, 686
BstAPI	GCANNNNNTGC	1 cut(s)	567
BstBAI	YACGTR	1 cut(s)	759
BstBI	TTCGAA	1 cut(s)	601
BstC8I	GCNNGC	2 cut(s)	88, 344
BstDEI	CTNAG	2 cut(s)	458, 491
BstF5I	GGATG	2 cut(s)	169, 464
BstHHI	GCGC	2 cut(s)	398, 464
BstKTI	GATC	3 cut(s)	82, 483, 662
BstMAI	GTCTC	2 cut(s)	265, 494
BstMBI	GATC	3 cut(s)	79, 480, 659
BstMWI	GCNNNNNNNGC	4 cut(s)	25, 312, 567, 768
BstNI	CCWGG	1 cut(s)	501
BstSCI	CCNGG	1 cut(s)	499
BstSFI	CTRYAG	2 cut(s)	190, 685
BstV1I	GCAGC	6 cut(s)	83, 204, 207, 633, 683, 726
Bsu15I	ATCGAT	1 cut(s)	261
BsuRI	GGCC	2 cut(s)	86, 168
BsuTUI	ATCGAT	1 cut(s)	261
BtsCI	GGATG	2 cut(s)	169, 464
BtsIMutI	CAGTG	3 cut(s)	160, 499, 633
Cac8I	GCNNGC	2 cut(s)	88, 344
CfoI	GCGC	2 cut(s)	398, 464
Cfr10I	RCCGGY	1 cut(s)	553
Cfr13I	GGNCC	1 cut(s)	116
ClaI	ATCGAT	1 cut(s)	261
Csp6I	GTAC	2 cut(s)	441, 756
CviAII	CATG	4 cut(s)	110, 208, 214, 611
CviJI	RGCY	9 cut(s)	74, 86, 168, 198, 223, 315, 521, 696, 771
CviKI_1	RGCY	9 cut(s)	74, 86, 168, 198, 223, 315, 521, 696, 771
CviQI	GTAC	2 cut(s)	441, 756
DdeI	CTNAG	2 cut(s)	458, 491
DpnI	GATC	3 cut(s)	81, 482, 661
DpnII	GATC	3 cut(s)	79, 480, 659
EaeI	YGGCCR	1 cut(s)	166
Eco147I	AGGCCT	1 cut(s)	86
Eco47I	GGWCC	1 cut(s)	116
Eco88I	CYCGRG	1 cut(s)	310
EcoRII	CCWGG	1 cut(s)	499
FaeI	CATG	4 cut(s)	113, 211, 217, 614
FaqI	GGGAC	3 cut(s)	102, 425, 482
FatI	CATG	4 cut(s)	109, 207, 213, 610
FbaI	TGATCA	1 cut(s)	79
FblI	GTMKAC	2 cut(s)	142, 817
Fnu4HI	GCNGC	7 cut(s)	72, 193, 196, 316, 647, 697, 715
FokI	GGATG	2 cut(s)	156, 451
Fsp4HI	GCNGC	7 cut(s)	72, 193, 196, 316, 647, 697, 715
FspBI	CTAG	3 cut(s)	764, 791, 821
GlaI	GCGC	2 cut(s)	397, 463
GluI	GCNGC	7 cut(s)	72, 193, 196, 316, 647, 697, 715
HaeIII	GGCC	2 cut(s)	86, 168
HapII	CCGG	1 cut(s)	554
HhaI	GCGC	2 cut(s)	398, 464
Hin1II	CATG	4 cut(s)	113, 211, 217, 614
Hin6I	GCGC	2 cut(s)	396, 462
HinP1I	GCGC	2 cut(s)	396, 462
HindIII	AAGCTT	1 cut(s)	221
HinfI	GANTC	1 cut(s)	240
HpaII	CCGG	1 cut(s)	554
HphI	GGTGA	2 cut(s)	193, 818
Hpy166II	GTNNAC	4 cut(s)	143, 626, 818, 826
Hpy188I	TCNGA	3 cut(s)	459, 547, 664
Hpy188III	TCNNGA	3 cut(s)	237, 310, 727
Hpy8I	GTNNAC	4 cut(s)	143, 626, 818, 826
HpyAV	CCTTC	3 cut(s)	167, 293, 329
HpyCH4III	ACNGT	3 cut(s)	164, 440, 686
HpyCH4IV	ACGT	3 cut(s)	423, 428, 758
HpyCH4V	TGCA	2 cut(s)	192, 649
HpyF10VI	GCNNNNNNNGC	4 cut(s)	25, 312, 567, 768
HpyF3I	CTNAG	2 cut(s)	458, 491
HpySE526I	ACGT	3 cut(s)	423, 428, 758
Hsp92II	CATG	4 cut(s)	113, 211, 217, 614
HspAI	GCGC	2 cut(s)	396, 462
Ksp22I	TGATCA	1 cut(s)	79
Kzo9I	GATC	3 cut(s)	79, 480, 659
Lsp1109I	GCAGC	6 cut(s)	83, 204, 207, 633, 683, 726
LweI	GCATC	1 cut(s)	473
MaeI	CTAG	3 cut(s)	764, 791, 821
MaeII	ACGT	3 cut(s)	423, 428, 758
MaeIII	GTNAC	1 cut(s)	424
MalI	GATC	3 cut(s)	81, 482, 661
MboI	GATC	3 cut(s)	79, 480, 659
MboII	GAAGA	1 cut(s)	584
MlsI	TGGCCA	1 cut(s)	168
MluCI	AATT	6 cut(s)	33, 60, 278, 325, 513, 706
MluNI	TGGCCA	1 cut(s)	168
MnlI	CCTC	7 cut(s)	24, 175, 238, 289, 317, 683, 750
Mox20I	TGGCCA	1 cut(s)	168
MroXI	GAANNNNTTC	1 cut(s)	588
MscI	TGGCCA	1 cut(s)	168
MseI	TTAA	3 cut(s)	54, 324, 434
MslI	CAYNNNNRTG	2 cut(s)	206, 212
Msp20I	TGGCCA	1 cut(s)	168
MspI	CCGG	1 cut(s)	554
MspR9I	CCNGG	1 cut(s)	501
MvaI	CCWGG	1 cut(s)	501
MwoI	GCNNNNNNNGC	4 cut(s)	25, 312, 567, 768
NdeII	GATC	3 cut(s)	79, 480, 659
NlaIII	CATG	4 cut(s)	113, 211, 217, 614
NlaIV	GGNNCC	1 cut(s)	118
NmuCI	GTSAC	1 cut(s)	424
NspV	TTCGAA	1 cut(s)	601
PasI	CCCWGGG	1 cut(s)	500
PceI	AGGCCT	1 cut(s)	86
PdmI	GAANNNNTTC	1 cut(s)	588
PfeI	GAWTC	1 cut(s)	240
PkrI	GCNGC	7 cut(s)	73, 194, 197, 317, 648, 698, 716
Ppu21I	YACGTR	1 cut(s)	759
Psp6I	CCWGG	1 cut(s)	499
PspGI	CCWGG	1 cut(s)	499
PspN4I	GGNNCC	1 cut(s)	118
PspPI	GGNCC	1 cut(s)	116
PstI	CTGCAG	1 cut(s)	194
RsaI	GTAC	2 cut(s)	442, 757
RsaNI	GTAC	2 cut(s)	441, 756
RseI	CAYNNNNRTG	2 cut(s)	206, 212
SaqAI	TTAA	3 cut(s)	54, 324, 434
SatI	GCNGC	7 cut(s)	72, 193, 196, 316, 647, 697, 715
Sau3AI	GATC	3 cut(s)	79, 480, 659
Sau96I	GGNCC	1 cut(s)	116
ScrFI	CCNGG	1 cut(s)	501
SfaNI	GCATC	1 cut(s)	473
SfcI	CTRYAG	2 cut(s)	190, 685
SfuI	TTCGAA	1 cut(s)	601
SinI	GGWCC	1 cut(s)	116
SmiMI	CAYNNNNRTG	2 cut(s)	206, 212
SpeI	ACTAGT	1 cut(s)	820
Sse9I	AATT	6 cut(s)	33, 60, 278, 325, 513, 706
SseBI	AGGCCT	1 cut(s)	86
SsiI	CCGC	1 cut(s)	316
SspMI	CTAG	3 cut(s)	764, 791, 821
StuI	AGGCCT	1 cut(s)	86
StyD4I	CCNGG	1 cut(s)	499
TaaI	ACNGT	3 cut(s)	164, 440, 686
TaiI	ACGT	3 cut(s)	426, 431, 761
TaqI	TCGA	4 cut(s)	261, 601, 630, 742
TasI	AATT	6 cut(s)	33, 60, 278, 325, 513, 706
TauI	GCSGC	1 cut(s)	318
TfiI	GAWTC	1 cut(s)	240
Tru1I	TTAA	3 cut(s)	54, 324, 434
Tru9I	TTAA	3 cut(s)	54, 324, 434
TscAI	CASTG	3 cut(s)	167, 499, 640
TseFI	GTSAC	1 cut(s)	424
TseI	GCWGC	6 cut(s)	71, 192, 195, 646, 696, 714
Tsp45I	GTSAC	1 cut(s)	424
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	1 cut(s)	128
TspRI	CASTG	3 cut(s)	167, 499, 640
VpaK11BI	GGWCC	1 cut(s)	116
XapI	RAATTY	1 cut(s)	513
XmiI	GTMKAC	2 cut(s)	142, 817
XmnI	GAANNNNTTC	1 cut(s)	588
XspI	CTAG	3 cut(s)	764, 791, 821

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