Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002212

Physical Location & Seq

Genomic Coordinates Reverse (-)

14099925 .. 14101040

Gene Structure 1116 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG162600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGAACATCGGTATGGACCTGTCTTCAGTCCAACCAAATTATATATATACTAATGTCAGTGATAACAAGGATGACAATTTATGTGAAGCGTGTGGAGTTTTGGATGGTGATGAGTTGACTAGTAGATGGGGAAACGATCATCGCAAGTCATTTAAAGCTTGTGTTGAGGGTTGTCATGATAGATTAGGTGTGTTGAGAGAAAAAAATGTGGATGTTGCAGGCTCAGTAAACATACTAAGACATGTGAAATATATTGTCAGTAAGGAGGAGGACGACAATTTGTACAAGGCACAGCAATTTTTGGATGTTCATGAGCTGACTGAGAGGTGGGGAAACAATGATAAGAAATTAGTTGAAGCTGGTCTTGAGGACCGTCATGATAGATTAGCCATGTTAAGTATAAAGAAGAGGAAAAGAGTGGTAAGATCCTACTTTAAAAGATATGCCGAGGATGTTGCAGTACCAGGGAAAATACCATTGAAAATGCCCTTGAAATTGGCAGTTCCTATTGTTGAGAGACTTCATCCAGTTGGAAGCCCTACTGCACCACCTCTGGTTTTGATGAGACCAACATTAAACAAAAGGAAAAGGTTTAGGGGTGTGGGCCGTAAGAGGAGCATCGCAACTATCAACCCAAGCTCTGAAGAAGTAAGAGCTTACTTTCGTAATGAGGAAGCTTTGAGGTACTTAGTCCCTGATAGGGGATTTTGTTACACAGCACTGGATGGTAGAAAGTCTGCAGTCGCTCCTCTACGGAAGGTGAGCAACATACACCGAGACCATGTTATGCTTAAAGCTGATAGGCCACGTGTTGTTTCCGTCTGTTGTCTTGTGCGGGATGTAGCTGCTAGATTGCCTGGAGGTATGGGTAGCAAAACAGATATATGTACTCTCATGCAGGACTTACAGTATCTAGTCAAAGATGTCACTGATCAACAACTTCATCATTTTGCTAGCAAAGGACTAGACAGGCTGCACTATGAAGTTGATCCCTGCGTCAAGTATGATGGAAAGTTGTGGGTTTATTTACATCGAAATAGAGGGGAGGAGGACGTTGAGGATGATGTTACGTTATGCTCTATCTACTTAAGGAGAAGTGATGAGAAGCATAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000785 GO:0000790 GO:0002020 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0019899 GO:0031011 GO:0031974 GO:0031981 GO:0032991 GO:0033202 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0070013 GO:0070603 GO:0097346 GO:1902494 GO:1904949

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

371

Amino Acids

42.49

Weight (kDa)

9.01

Isoelectric Point (pI)

48.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_2nd_NFRKB	PF25793	218 - 350	1.8e-49	NFRKB second winged helix domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0002212)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37320
fragaria_vesca	FvH4_6g14840 FvH4_6g14850 FvH4_6g14860 FvH4_6g14860 FvH4_6g14860
malus_domestica	MD12G1130300.v1.1
prunus_persica	Prupe.6G245300_v2.0.a1 Prupe.6G245400_v2.0.a1 Prupe.6G245400_v2.0.a1
pyrus_communis	pycom12g12640
rosa_chinensis	RchiOBHm_Chr3g0468071
rosa_laevigata	RLG00000024452 RLG00000024453 RLG00000024454
rosa_multiflora	Rmu_co8076902.1_g000001 Rmu_co8076904.1_g000001 Rmu_co8172106.1_g000001 Rmu_co8309729.1_g000001 Rmu_sc0005326.1_g000004 Rmu_sc0012651.1_g000004 Rmu_sc0012651.1_g000005
rosa_roxburghii	Rroxscaffold_6G00413080 Rroxscaffold_6G00413090 Rroxscaffold_6G00413100
rosa_rugosa	Rorug03G0092100 Rorug03G0092200 Rorug03G0092300
rosa_samantha	Rh3AG140600 Rh3AG140700 Rh3AG140800 Rh3BG161900 Rh3BG162000 Rh3BG162100 Rh3BG162200 Rh3CG161900 Rh3CG162000 Rh3DG162400 Rh3DG162500 Rh3DG162600
rosa_wichuraiana	Rw3G013280 Rw3G013290 Rw3G013300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	835
AclWI	GGATC	2 cut(s)	420, 983
AcuI	CTGAAG	2 cut(s)	9, 663
AcvI	CACGTG	1 cut(s)	809
AfaI	GTAC	4 cut(s)	284, 462, 686, 889
AfiI	CCNNNNNNNGG	2 cut(s)	700, 701
AflII	CTTAAG	1 cut(s)	1087
AflIII	ACRYGT	2 cut(s)	241, 808
AgsI	TTSAA	3 cut(s)	356, 481, 493
AhlI	ACTAGT	1 cut(s)	119
AjnI	CCWGG	2 cut(s)	463, 856
AluBI	AGCT	8 cut(s)	158, 316, 359, 639, 656, 677, 797, 845
AluI	AGCT	8 cut(s)	158, 316, 359, 639, 656, 677, 797, 845
Alw26I	GTCTC	3 cut(s)	511, 559, 771
AlwI	GGATC	2 cut(s)	420, 983
AoxI	GGCC	2 cut(s)	604, 803
ApeKI	GCWGC	2 cut(s)	845, 973
AspS9I	GGNCC	3 cut(s)	16, 370, 604
AsuHPI	GGTGA	2 cut(s)	119, 772
AsuNHI	GCTAGC	1 cut(s)	953
AvaII	GGWCC	2 cut(s)	16, 370
BbrPI	CACGTG	1 cut(s)	809
BbsI	GAAGAC	1 cut(s)	15
BbvI	GCAGC	2 cut(s)	832, 960
BccI	CCATC	4 cut(s)	98, 120, 719, 1001
BceAI	ACGGC	1 cut(s)	591
BcgI	CGANNNNNNTGC	2 cut(s)	437, 471
BciT130I	CCWGG	2 cut(s)	465, 858
BclI	TGATCA	1 cut(s)	931
BcoDI	GTCTC	3 cut(s)	511, 559, 771
BcuI	ACTAGT	1 cut(s)	119
BfaI	CTAG	5 cut(s)	120, 849, 914, 954, 965
BfmI	CTRYAG	1 cut(s)	738
BfrI	CTTAAG	1 cut(s)	1087
BisI	GCNGC	2 cut(s)	846, 974
BlsI	GCNGC	2 cut(s)	847, 975
Bme1390I	CCNGG	2 cut(s)	465, 858
Bme18I	GGWCC	2 cut(s)	16, 370
BmgT120I	GGNCC	3 cut(s)	16, 370, 604
BmrFI	CCNGG	2 cut(s)	465, 858
BmsI	GCATC	1 cut(s)	627
BmtI	GCTAGC	1 cut(s)	957
BpiI	GAAGAC	1 cut(s)	15
BpmI	CTGGAG	1 cut(s)	879
BpuEI	CTTGAG	1 cut(s)	386
BsaAI	YACGTR	1 cut(s)	809
BsaI	GGTCTC	2 cut(s)	559, 771
BsaJI	CCNNGG	2 cut(s)	447, 464
Bsc4I	CCNNNNNNNGG	2 cut(s)	700, 701
Bse1I	ACTGG	2 cut(s)	527, 726
BseBI	CCWGG	2 cut(s)	465, 858
BseDI	CCNNGG	2 cut(s)	447, 464
BseGI	GGATG	9 cut(s)	76, 109, 217, 310, 457, 523, 730, 844, 1066
BseLI	CCNNNNNNNGG	2 cut(s)	700, 701
BseMII	CTCAG	2 cut(s)	237, 312
BseNI	ACTGG	2 cut(s)	527, 726
BseRI	GAGGAG	4 cut(s)	281, 628, 738, 1061
BseXI	GCAGC	2 cut(s)	832, 960
BsgI	GTGCAG	2 cut(s)	528, 959
BshFI	GGCC	2 cut(s)	606, 805
BslFI	GGGAC	1 cut(s)	677
BslI	CCNNNNNNNGG	2 cut(s)	700, 701
BsmAI	GTCTC	3 cut(s)	511, 559, 771
BsmFI	GGGAC	1 cut(s)	677
BsnI	GGCC	2 cut(s)	606, 805
Bso31I	GGTCTC	2 cut(s)	559, 771
Bsp1407I	TGTACA	1 cut(s)	282
Bsp143I	GATC	4 cut(s)	136, 425, 931, 988
BspACI	CCGC	1 cut(s)	835
BspANI	GGCC	2 cut(s)	606, 805
BspCNI	CTCAG	2 cut(s)	236, 313
BspHI	TCATGA	3 cut(s)	175, 310, 376
BspMAI	CTGCAG	1 cut(s)	742
BspOI	GCTAGC	1 cut(s)	957
BspPI	GGATC	2 cut(s)	420, 983
BspTI	CTTAAG	1 cut(s)	1087
BspTNI	GGTCTC	2 cut(s)	559, 771
BsrGI	TGTACA	1 cut(s)	282
BsrI	ACTGG	2 cut(s)	527, 726
BssECI	CCNNGG	2 cut(s)	447, 464
BssMI	GATC	4 cut(s)	136, 425, 931, 988
Bst2UI	CCWGG	2 cut(s)	465, 858
Bst4CI	ACNGT	2 cut(s)	374, 909
Bst6I	CTCTTC	1 cut(s)	401
BstAFI	CTTAAG	1 cut(s)	1087
BstAUI	TGTACA	1 cut(s)	282
BstBAI	YACGTR	1 cut(s)	809
BstC8I	GCNNGC	2 cut(s)	220, 955
BstDEI	CTNAG	4 cut(s)	223, 236, 321, 688
BstF5I	GGATG	9 cut(s)	76, 109, 217, 310, 457, 523, 730, 844, 1066
BstKTI	GATC	4 cut(s)	139, 428, 934, 991
BstMAI	GTCTC	3 cut(s)	511, 559, 771
BstMBI	GATC	4 cut(s)	136, 425, 931, 988
BstNI	CCWGG	2 cut(s)	465, 858
BstNSI	RCATGY	1 cut(s)	245
BstSCI	CCNGG	2 cut(s)	463, 856
BstSFI	CTRYAG	1 cut(s)	738
BstV1I	GCAGC	2 cut(s)	832, 960
BstV2I	GAAGAC	1 cut(s)	15
BstX2I	RGATCY	1 cut(s)	425
BstYI	RGATCY	1 cut(s)	425
BsuRI	GGCC	2 cut(s)	606, 805
BtgZI	GCGATG	2 cut(s)	125, 604
BtsCI	GGATG	9 cut(s)	76, 109, 217, 310, 457, 523, 730, 844, 1066
BtsIMutI	CAGTG	3 cut(s)	64, 719, 927
Cac8I	GCNNGC	2 cut(s)	220, 955
CciI	TCATGA	3 cut(s)	175, 310, 376
Cfr13I	GGNCC	3 cut(s)	16, 370, 604
CseI	GACGC	1 cut(s)	985
Csp6I	GTAC	4 cut(s)	283, 461, 685, 888
CviAII	CATG	7 cut(s)	176, 242, 311, 377, 391, 782, 895
CviQI	GTAC	4 cut(s)	283, 461, 685, 888
DdeI	CTNAG	4 cut(s)	223, 236, 321, 688
DpnI	GATC	4 cut(s)	138, 427, 933, 990
DpnII	GATC	4 cut(s)	136, 425, 931, 988
DraI	TTTAAA	2 cut(s)	154, 436
Eam1104I	CTCTTC	1 cut(s)	401
EarI	CTCTTC	1 cut(s)	401
Eco31I	GGTCTC	2 cut(s)	559, 771
Eco47I	GGWCC	2 cut(s)	16, 370
Eco57I	CTGAAG	2 cut(s)	9, 663
Eco72I	CACGTG	1 cut(s)	809
EcoRII	CCWGG	2 cut(s)	463, 856
FaeI	CATG	7 cut(s)	179, 245, 314, 380, 394, 785, 898
FalI	AAGNNNNNCTT	2 cut(s)	348, 380
FaqI	GGGAC	1 cut(s)	677
FatI	CATG	7 cut(s)	175, 241, 310, 376, 390, 781, 894
FauI	CCCGC	1 cut(s)	828
FbaI	TGATCA	1 cut(s)	931
Fnu4HI	GCNGC	2 cut(s)	846, 974
FokI	GGATG	9 cut(s)	83, 116, 224, 317, 464, 510, 737, 851, 1073
Fsp4HI	GCNGC	2 cut(s)	846, 974
FspBI	CTAG	5 cut(s)	120, 849, 914, 954, 965
GluI	GCNGC	2 cut(s)	846, 974
GsuI	CTGGAG	1 cut(s)	879
HaeIII	GGCC	2 cut(s)	606, 805
HgaI	GACGC	1 cut(s)	985
Hin1II	CATG	7 cut(s)	179, 245, 314, 380, 394, 785, 898
HincII	GTYRAC	1 cut(s)	117
HindII	GTYRAC	1 cut(s)	117
HindIII	AAGCTT	2 cut(s)	156, 675
HphI	GGTGA	2 cut(s)	119, 772
Hpy166II	GTNNAC	2 cut(s)	117, 229
Hpy188I	TCNGA	1 cut(s)	643
Hpy188III	TCNNGA	4 cut(s)	176, 311, 365, 377
Hpy8I	GTNNAC	2 cut(s)	117, 229
HpyAV	CCTTC	1 cut(s)	751
HpyCH4III	ACNGT	2 cut(s)	374, 909
HpyCH4IV	ACGT	3 cut(s)	808, 1053, 1070
HpyCH4V	TGCA	6 cut(s)	218, 458, 545, 740, 898, 976
HpyF3I	CTNAG	4 cut(s)	223, 236, 321, 688
HpySE526I	ACGT	3 cut(s)	808, 1053, 1070
Hsp92II	CATG	7 cut(s)	179, 245, 314, 380, 394, 785, 898
Ksp22I	TGATCA	1 cut(s)	931
Kzo9I	GATC	4 cut(s)	136, 425, 931, 988
LmnI	GCTCC	2 cut(s)	615, 751
Lsp1109I	GCAGC	2 cut(s)	832, 960
LweI	GCATC	1 cut(s)	627
MaeI	CTAG	5 cut(s)	120, 849, 914, 954, 965
MaeII	ACGT	3 cut(s)	808, 1053, 1070
MaeIII	GTNAC	3 cut(s)	710, 925, 1066
MalI	GATC	4 cut(s)	138, 427, 933, 990
MboI	GATC	4 cut(s)	136, 425, 931, 988
MboII	GAAGA	3 cut(s)	15, 418, 656
MflI	RGATCY	1 cut(s)	425
MluCI	AATT	7 cut(s)	37, 76, 277, 296, 347, 494, 1111
MmeI	TCCRAC	2 cut(s)	55, 511
MseI	TTAA	6 cut(s)	153, 395, 435, 575, 792, 1088
MslI	CAYNNNNRTG	1 cut(s)	11
MspCI	CTTAAG	1 cut(s)	1087
MspR9I	CCNGG	2 cut(s)	465, 858
MvaI	CCWGG	2 cut(s)	465, 858
NdeII	GATC	4 cut(s)	136, 425, 931, 988
NheI	GCTAGC	1 cut(s)	953
NlaIII	CATG	7 cut(s)	179, 245, 314, 380, 394, 785, 898
NmeAIII	GCCGAG	1 cut(s)	472
NmuCI	GTSAC	1 cut(s)	925
NspI	RCATGY	1 cut(s)	245
PagI	TCATGA	3 cut(s)	175, 310, 376
PciI	ACATGT	1 cut(s)	241
PkrI	GCNGC	2 cut(s)	847, 975
PmaCI	CACGTG	1 cut(s)	809
PmlI	CACGTG	1 cut(s)	809
Ppu21I	YACGTR	1 cut(s)	809
PscI	ACATGT	1 cut(s)	241
Psp6I	CCWGG	2 cut(s)	463, 856
PspCI	CACGTG	1 cut(s)	809
PspGI	CCWGG	2 cut(s)	463, 856
PspPI	GGNCC	3 cut(s)	16, 370, 604
PstI	CTGCAG	1 cut(s)	742
PsuI	RGATCY	1 cut(s)	425
RsaI	GTAC	4 cut(s)	284, 462, 686, 889
RsaNI	GTAC	4 cut(s)	283, 461, 685, 888
RseI	CAYNNNNRTG	1 cut(s)	11
SaqAI	TTAA	6 cut(s)	153, 395, 435, 575, 792, 1088
SatI	GCNGC	2 cut(s)	846, 974
Sau3AI	GATC	4 cut(s)	136, 425, 931, 988
Sau96I	GGNCC	3 cut(s)	16, 370, 604
ScrFI	CCNGG	2 cut(s)	465, 858
SfaNI	GCATC	1 cut(s)	627
SfcI	CTRYAG	1 cut(s)	738
SinI	GGWCC	2 cut(s)	16, 370
SmiMI	CAYNNNNRTG	1 cut(s)	11
SmlI	CTYRAG	2 cut(s)	365, 1087
SmoI	CTYRAG	2 cut(s)	365, 1087
SpeI	ACTAGT	1 cut(s)	119
Sse9I	AATT	7 cut(s)	37, 76, 277, 296, 347, 494, 1111
SsiI	CCGC	1 cut(s)	835
SspMI	CTAG	5 cut(s)	120, 849, 914, 954, 965
StyD4I	CCNGG	2 cut(s)	463, 856
TaaI	ACNGT	2 cut(s)	374, 909
TaiI	ACGT	3 cut(s)	811, 1056, 1073
TaqI	TCGA	1 cut(s)	1033
TasI	AATT	7 cut(s)	37, 76, 277, 296, 347, 494, 1111
TatI	WGTACW	2 cut(s)	282, 887
Tru1I	TTAA	6 cut(s)	153, 395, 435, 575, 792, 1088
Tru9I	TTAA	6 cut(s)	153, 395, 435, 575, 792, 1088
TscAI	CASTG	3 cut(s)	64, 726, 934
TseFI	GTSAC	1 cut(s)	925
TseI	GCWGC	2 cut(s)	845, 973
Tsp45I	GTSAC	1 cut(s)	925
TspDTI	ATGAA	5 cut(s)	17, 299, 512, 932, 996
TspGWI	ACGGA	2 cut(s)	769, 808
TspRI	CASTG	3 cut(s)	64, 726, 934
Vha464I	CTTAAG	1 cut(s)	1087
VpaK11BI	GGWCC	2 cut(s)	16, 370
XceI	RCATGY	1 cut(s)	245
XspI	CTAG	5 cut(s)	120, 849, 914, 954, 965

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