Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0009676

Physical Location & Seq

Genomic Coordinates Reverse (-)

10262011 .. 10264883

Gene Structure 2873 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G010620.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGATGCGGCTGGAGACGCATTGTCTTCCAATACATATTGAGTCTGATGATGGCGGTGATGAGGTTGCAAATAAAATTGAGATGGCAAAAAGGCGTAAGGTAAAGATTGATCATGGGCGAACAACAAGCAGCATAGATCATCAGGAGATCAAGCAGGGTGCTTCTGTTTCTTGTTTGTGTGATGTTTGTGCCAACTTTGCTGTGACATTCAGTTTTACCGATGATGAAATTGAAGGTTTACGGAAGGTCAATACTCATGAAATGCTACATCACAGAAAACTCCACCTGGTACTTAATCTAGAACGCACCCTGCTGGATCACGCGCAACTCAGTGATCTGACCCCTGAAGAAGATGAATATGTAAAGACTTTAACGATGGATCATCCTCTGCCTCTGCAAGATGTTCTCAAATTCAGGCCCTTTCTGAGAACCTTTCTGAAGGAAGCCAGTGACTTTTTTGAAATTTATGCATATGCAAATGCTCCTCGATCTCTAGTGTGGAAAATTGTTGAGCTGCTCGATCCTAGAAATGAGTACTTCGGTCGTAGAGTGATATCGCGTGAGAGCTTTTATAGCACCCACCGAGGAAAGAAGTCTCTTGATCTTGTGCTTGGCCAAAAGTCTGCTGTTTTGGTGGTTGATGATGAAGAAGATGGATGGCAGGAGAAAAATCAAAATAATGTAATGCTACTGGGAGAGTATTGTTTCTTCAAAAAGACGAGTGGCAAGAAGAGAAAACGGAAGTCCCTTTGTGAGTTGAAATCTGATGAACGGGCTGCTTCTCTTGCATCTCTTCTTAAACAGCTTAAGCAAGTACACAACAGGTTCTTTAATGATGAAATAATGTGTGACAACCTTTTCGACAGAGATGTGAGGGTGCTGTTAAAAATTGGGTGGGACTCTAATATTGACGATAGCCTTCAGTTTTGGAGGAAGGCGGTATCGAATTGTATGCGAAAAAAATTTGTGATGTCCCTTAATTATCAACATAAGAATTTGGCAGAGCAGTCATCCAGAGCTACTTGTGTTGAGGAACAAGCGGATGATCCATCGTCATTGGAGGTTGCAGAAGCAGCTCATGTTGGAAAGTCACCTGCTCGTTGGTTCCATCTGAGTTGGATTGACACATCACTCCGTTTGTGGCAGAAGAGTAATGTAGAAAAGAACCTTGTTATGATTGAGGATAGCGATTTTACCTGCAGCTCATGTGGTTGCAGCTCATGCATCACAACTTTTTGTATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0004721 GO:0004722 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006357 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0008022 GO:0008150 GO:0008152 GO:0008420 GO:0009628 GO:0009651 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016311 GO:0016591 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0036211 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070940 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BRCT NIF PTCB-BRCT

Protein Analysis

414

Amino Acids

47.8

Weight (kDa)

6.33

Isoelectric Point (pI)

51.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	95 - 237	1.2e-17	NLI interacting factor-like phosphatase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009676)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g02680 FvH4_4g35032 FvH4_6g12031
rosa_chinensis	RchiOBHm_Chr3g0463881
rosa_laevigata	RLG00000024739 RLG00000024742 RLG00000024745 RLG00000024748
rosa_multiflora	Rmu_co8025626.1_g000001 Rmu_co8196170.1_g000001 Rmu_sc0000517.1_g000007 Rmu_sc0004796.1_g000001 Rmu_sc0042095.1_g000001
rosa_roxburghii	Rroxscaffold_6G00416210
rosa_rugosa	Rorug03G0068800 Rorug03G0068900
rosa_samantha	Rh3AG125800 Rh3BG129900 Rh3CG132400 Rh3DG131000 Rh3DG131100
rosa_wichuraiana	Rw3G010620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	1102
Acc36I	ACCTGC	2 cut(s)	1102, 1205
AccII	CGCG	2 cut(s)	323, 559
AciI	CCGC	4 cut(s)	7, 54, 938, 1040
AclWI	GGATC	4 cut(s)	324, 387, 515, 1040
AcoI	YGGCCR	1 cut(s)	613
AcsI	RAATTY	4 cut(s)	410, 462, 962, 994
AcuI	CTGAAG	3 cut(s)	366, 458, 905
AfaI	GTAC	3 cut(s)	291, 536, 816
AflII	CTTAAG	1 cut(s)	806
AgsI	TTSAA	4 cut(s)	233, 461, 712, 760
AhdI	GACNNNNNGTC	1 cut(s)	21
AjnI	CCWGG	1 cut(s)	285
AluBI	AGCT	7 cut(s)	514, 567, 805, 1019, 1076, 1203, 1218
AluI	AGCT	7 cut(s)	514, 567, 805, 1019, 1076, 1203, 1218
Alw26I	GTCTC	2 cut(s)	8, 600
AlwI	GGATC	4 cut(s)	324, 387, 515, 1040
AoxI	GGCC	2 cut(s)	416, 613
ApeKI	GCWGC	6 cut(s)	129, 514, 776, 1073, 1200, 1215
ApoI	RAATTY	4 cut(s)	410, 462, 962, 994
ArsI	GACNNNNNNTTYG	2 cut(s)	842, 874
AspLEI	GCGC	1 cut(s)	325
AspS9I	GGNCC	1 cut(s)	417
AsuHPI	GGTGA	2 cut(s)	68, 1083
BalI	TGGCCA	1 cut(s)	615
BarI	GAAGNNNNNNTAC	2 cut(s)	692, 724
BbsI	GAAGAC	1 cut(s)	17
BbvI	GCAGC	6 cut(s)	141, 501, 763, 1085, 1212, 1227
BccI	CCATC	7 cut(s)	44, 76, 370, 647, 651, 1057, 1116
BcgI	CGANNNNNNTGC	2 cut(s)	934, 968
BciT130I	CCWGG	1 cut(s)	287
BclI	TGATCA	1 cut(s)	109
BcoDI	GTCTC	2 cut(s)	8, 600
BfaI	CTAG	3 cut(s)	299, 494, 525
BfmI	CTRYAG	1 cut(s)	1198
BfrI	CTTAAG	1 cut(s)	806
BfuAI	ACCTGC	2 cut(s)	1102, 1205
BisI	GCNGC	7 cut(s)	8, 130, 515, 777, 1074, 1201, 1216
BlsI	GCNGC	7 cut(s)	9, 131, 516, 778, 1075, 1202, 1217
BmcAI	AGTACT	1 cut(s)	536
Bme1390I	CCNGG	1 cut(s)	287
BmeRI	GACNNNNNGTC	1 cut(s)	21
BmgT120I	GGNCC	1 cut(s)	417
BmiI	GGNNCC	1 cut(s)	1106
BmrFI	CCNGG	1 cut(s)	287
BmrI	ACTGGG	1 cut(s)	701
BmsI	GCATC	2 cut(s)	797, 1233
BmuI	ACTGGG	1 cut(s)	701
BpiI	GAAGAC	1 cut(s)	17
BpmI	CTGGAG	1 cut(s)	32
BsaJI	CCNNGG	1 cut(s)	583
Bse1I	ACTGG	2 cut(s)	447, 696
BseBI	CCWGG	1 cut(s)	287
BseDI	CCNNGG	1 cut(s)	583
BseGI	GGATG	4 cut(s)	382, 662, 1010, 1048
BseMII	CTCAG	3 cut(s)	343, 416, 1103
BseNI	ACTGG	2 cut(s)	447, 696
BseRI	GAGGAG	1 cut(s)	474
BseXI	GCAGC	6 cut(s)	141, 501, 763, 1085, 1212, 1227
Bsh1236I	CGCG	2 cut(s)	323, 559
Bsh1285I	CGRYCG	1 cut(s)	544
BshFI	GGCC	2 cut(s)	418, 615
BsiEI	CGRYCG	1 cut(s)	544
BslFI	GGGAC	3 cut(s)	730, 911, 958
BsmAI	GTCTC	2 cut(s)	8, 600
BsmBI	CGTCTC	1 cut(s)	8
BsmFI	GGGAC	3 cut(s)	730, 911, 958
BsnI	GGCC	2 cut(s)	418, 615
BspACI	CCGC	4 cut(s)	7, 54, 938, 1040
BspANI	GGCC	2 cut(s)	418, 615
BspCNI	CTCAG	3 cut(s)	342, 417, 1104
BspFNI	CGCG	2 cut(s)	323, 559
BspHI	TCATGA	1 cut(s)	256
BspLI	GGNNCC	1 cut(s)	1106
BspMAI	CTGCAG	1 cut(s)	1202
BspMI	ACCTGC	2 cut(s)	1102, 1205
BspPI	GGATC	4 cut(s)	324, 387, 515, 1040
BspTI	CTTAAG	1 cut(s)	806
BsrI	ACTGG	2 cut(s)	447, 696
BssECI	CCNNGG	1 cut(s)	583
Bst2UI	CCWGG	1 cut(s)	287
Bst6I	CTCTTC	3 cut(s)	725, 798, 1142
BstAFI	CTTAAG	1 cut(s)	806
BstAPI	GCANNNNNTGC	1 cut(s)	1221
BstDEI	CTNAG	3 cut(s)	329, 425, 1112
BstF5I	GGATG	4 cut(s)	382, 662, 1010, 1048
BstFNI	CGCG	2 cut(s)	323, 559
BstHHI	GCGC	1 cut(s)	325
BstMAI	GTCTC	2 cut(s)	8, 600
BstMCI	CGRYCG	1 cut(s)	544
BstMWI	GCNNNNNNNGC	6 cut(s)	16, 197, 573, 785, 1073, 1221
BstNI	CCWGG	1 cut(s)	287
BstSCI	CCNGG	1 cut(s)	285
BstSFI	CTRYAG	1 cut(s)	1198
BstUI	CGCG	2 cut(s)	323, 559
BstV1I	GCAGC	6 cut(s)	141, 501, 763, 1085, 1212, 1227
BstV2I	GAAGAC	1 cut(s)	17
BsuRI	GGCC	2 cut(s)	418, 615
BtsCI	GGATG	4 cut(s)	382, 662, 1010, 1048
BtsIMutI	CAGTG	2 cut(s)	337, 454
BveI	ACCTGC	2 cut(s)	1102, 1205
CciI	TCATGA	1 cut(s)	256
CfoI	GCGC	1 cut(s)	325
Cfr13I	GGNCC	1 cut(s)	417
CseI	GACGC	1 cut(s)	25
CsiI	ACCWGGT	1 cut(s)	285
Csp6I	GTAC	3 cut(s)	290, 535, 815
CviAII	CATG	5 cut(s)	113, 257, 1079, 1206, 1221
CviQI	GTAC	3 cut(s)	290, 535, 815
DdeI	CTNAG	3 cut(s)	329, 425, 1112
DriI	GACNNNNNGTC	1 cut(s)	21
EaeI	YGGCCR	1 cut(s)	613
Eam1104I	CTCTTC	3 cut(s)	725, 798, 1142
Eam1105I	GACNNNNNGTC	1 cut(s)	21
EarI	CTCTTC	3 cut(s)	725, 798, 1142
Eco32I	GATATC	1 cut(s)	555
Eco57I	CTGAAG	3 cut(s)	366, 458, 905
EcoO109I	RGGNCCY	1 cut(s)	417
EcoRII	CCWGG	1 cut(s)	285
EcoRV	GATATC	1 cut(s)	555
EcoT22I	ATGCAT	2 cut(s)	472, 1226
Esp3I	CGTCTC	1 cut(s)	8
FaeI	CATG	5 cut(s)	116, 260, 1082, 1209, 1224
FaqI	GGGAC	3 cut(s)	730, 911, 958
FatI	CATG	5 cut(s)	112, 256, 1078, 1205, 1220
FauNDI	CATATG	1 cut(s)	472
FbaI	TGATCA	1 cut(s)	109
Fnu4HI	GCNGC	7 cut(s)	8, 130, 515, 777, 1074, 1201, 1216
FokI	GGATG	4 cut(s)	369, 669, 997, 1055
Fsp4HI	GCNGC	7 cut(s)	8, 130, 515, 777, 1074, 1201, 1216
FspBI	CTAG	3 cut(s)	299, 494, 525
GlaI	GCGC	1 cut(s)	324
GluI	GCNGC	7 cut(s)	8, 130, 515, 777, 1074, 1201, 1216
GsuI	CTGGAG	1 cut(s)	32
HaeIII	GGCC	2 cut(s)	418, 615
HgaI	GACGC	1 cut(s)	25
HhaI	GCGC	1 cut(s)	325
Hin1II	CATG	5 cut(s)	116, 260, 1082, 1209, 1224
Hin6I	GCGC	1 cut(s)	323
HinP1I	GCGC	1 cut(s)	323
HinfI	GANTC	2 cut(s)	41, 899
HphI	GGTGA	2 cut(s)	68, 1083
Hpy166II	GTNNAC	2 cut(s)	239, 817
Hpy188I	TCNGA	6 cut(s)	46, 339, 426, 438, 766, 1113
Hpy188III	TCNNGA	5 cut(s)	143, 257, 299, 599, 1014
Hpy8I	GTNNAC	2 cut(s)	239, 817
HpyAV	CCTTC	5 cut(s)	227, 238, 433, 928, 929
HpyCH4V	TGCA	9 cut(s)	68, 397, 470, 476, 788, 1067, 1200, 1215, 1224
HpyF10VI	GCNNNNNNNGC	6 cut(s)	16, 197, 573, 785, 1073, 1221
HpyF3I	CTNAG	3 cut(s)	329, 425, 1112
Hsp92II	CATG	5 cut(s)	116, 260, 1082, 1209, 1224
HspAI	GCGC	1 cut(s)	323
Ksp22I	TGATCA	1 cut(s)	109
LmnI	GCTCC	1 cut(s)	487
Lsp1109I	GCAGC	6 cut(s)	141, 501, 763, 1085, 1212, 1227
LweI	GCATC	2 cut(s)	797, 1233
MabI	ACCWGGT	1 cut(s)	285
MaeI	CTAG	3 cut(s)	299, 494, 525
MaeIII	GTNAC	4 cut(s)	202, 449, 848, 1089
MboII	GAAGA	9 cut(s)	17, 359, 362, 659, 662, 700, 742, 785, 1159
MlsI	TGGCCA	1 cut(s)	615
MluNI	TGGCCA	1 cut(s)	615
MlyI	GAGTC	2 cut(s)	50, 893
MmeI	TCCRAC	2 cut(s)	1063, 1097
Mox20I	TGGCCA	1 cut(s)	615
Mph1103I	ATGCAT	2 cut(s)	472, 1226
MscI	TGGCCA	1 cut(s)	615
MseI	TTAA	7 cut(s)	294, 371, 798, 807, 831, 884, 978
Msp20I	TGGCCA	1 cut(s)	615
MspCI	CTTAAG	1 cut(s)	806
MspR9I	CCNGG	1 cut(s)	287
MvaI	CCWGG	1 cut(s)	287
MvnI	CGCG	2 cut(s)	323, 559
MwoI	GCNNNNNNNGC	6 cut(s)	16, 197, 573, 785, 1073, 1221
NdeI	CATATG	1 cut(s)	472
NlaIII	CATG	5 cut(s)	116, 260, 1082, 1209, 1224
NlaIV	GGNNCC	1 cut(s)	1106
NmuCI	GTSAC	4 cut(s)	202, 449, 848, 1089
NsiI	ATGCAT	2 cut(s)	472, 1226
PagI	TCATGA	1 cut(s)	256
PaqCI	CACCTGC	1 cut(s)	1102
PkrI	GCNGC	7 cut(s)	9, 131, 516, 778, 1075, 1202, 1217
PleI	GAGTC	2 cut(s)	49, 893
PpsI	GAGTC	2 cut(s)	49, 893
Psp6I	CCWGG	1 cut(s)	285
PspGI	CCWGG	1 cut(s)	285
PspN4I	GGNNCC	1 cut(s)	1106
PspPI	GGNCC	1 cut(s)	417
PstI	CTGCAG	1 cut(s)	1202
RsaI	GTAC	3 cut(s)	291, 536, 816
RsaNI	GTAC	3 cut(s)	290, 535, 815
SaqAI	TTAA	7 cut(s)	294, 371, 798, 807, 831, 884, 978
SatI	GCNGC	7 cut(s)	8, 130, 515, 777, 1074, 1201, 1216
Sau96I	GGNCC	1 cut(s)	417
ScaI	AGTACT	1 cut(s)	536
SchI	GAGTC	2 cut(s)	50, 893
ScrFI	CCNGG	1 cut(s)	287
SexAI	ACCWGGT	1 cut(s)	285
SfaNI	GCATC	2 cut(s)	797, 1233
SfcI	CTRYAG	1 cut(s)	1198
SmlI	CTYRAG	1 cut(s)	806
SmoI	CTYRAG	1 cut(s)	806
SsiI	CCGC	4 cut(s)	7, 54, 938, 1040
SspI	AATATT	1 cut(s)	907
SspMI	CTAG	3 cut(s)	299, 494, 525
StyD4I	CCNGG	1 cut(s)	285
TaqI	TCGA	4 cut(s)	487, 519, 861, 944
TaqII	GACCGA	1 cut(s)	530
TatI	WGTACW	2 cut(s)	534, 814
TauI	GCSGC	1 cut(s)	10
Tru1I	TTAA	7 cut(s)	294, 371, 798, 807, 831, 884, 978
Tru9I	TTAA	7 cut(s)	294, 371, 798, 807, 831, 884, 978
TscAI	CASTG	2 cut(s)	337, 454
TseFI	GTSAC	4 cut(s)	202, 449, 848, 1089
TseI	GCWGC	6 cut(s)	129, 514, 776, 1073, 1200, 1215
Tsp45I	GTSAC	4 cut(s)	202, 449, 848, 1089
TspDTI	ATGAA	6 cut(s)	240, 273, 369, 660, 783, 852
TspGWI	ACGGA	3 cut(s)	256, 754, 1124
TspRI	CASTG	2 cut(s)	337, 454
Vha464I	CTTAAG	1 cut(s)	806
XapI	RAATTY	4 cut(s)	410, 462, 962, 994
XbaI	TCTAGA	1 cut(s)	298
XspI	CTAG	3 cut(s)	299, 494, 525
ZrmI	AGTACT	1 cut(s)	536
Zsp2I	ATGCAT	2 cut(s)	472, 1226

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