Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Forward (+)

35306121 .. 35308350

Gene Structure 2230 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG323500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGTTTGAACTGTATATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTACCCTGCTTGATCCTAGGAAGGAGTATTTCACTTCCAGTTATAAAGTCATATCGTGCGAGGATCACAGAATCTTGGGGAGATATAAGAGTCTGGATGCTGTGGTTGGCTGCAATTATTCTAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGACAAAGGAAAGCCGGGACAATCTAATCGTTGTCGAGAAGTATTGTTTCTTTAAGCACAAAATGGGCCTAGCTAAATGCAAGTCTTATGCTGAGTTAAAGACTGATGAATGCGGATATCTTGCGGCACTTCTTGAAGTGCTTAAGGTAATCAACCGTATCTTCTGTGATGAACTAGCCAGAAATCCTTCTGGTGTAGATGTGAGGGATGTGTTAGAACTGTTTAGAAACAATTGTTGA

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

149

Amino Acids

17.28

Weight (kDa)

6.14

Isoelectric Point (pI)

27.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	1 - 102	6.7e-11	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: OG0001341)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g10330
rosa_chinensis	RchiOBHm_Chr2g0124471 RchiOBHm_Chr2g0128771 RchiOBHm_Chr3g0488911 RchiOBHm_Chr7g0210561 RchiOBHm_Chr7g0211191 RchiOBHm_Chr7g0211371 RchiOBHm_Chr7g0211471 RchiOBHm_Chr7g0211491
rosa_laevigata	RLG00000003001 RLG00000018803 RLG00000022902
rosa_multiflora	Rmu_co8429473.1_g000001 Rmu_sc0001208.1_g000002 Rmu_sc0001303.1_g000009 Rmu_sc0002283.1_g000067 Rmu_sc0005514.1_g000010 Rmu_sc0007204.1_g000013 Rmu_sc0018619.1_g000009
rosa_roxburghii	Rroxscaffold_1G00018290 Rroxscaffold_2G00115300 Rroxscaffold_2G00115330 Rroxscaffold_2G00118520 Rroxscaffold_2G00118830 Rroxscaffold_2G00119890 Rroxscaffold_3G00247870 Rroxscaffold_7G00186360 Rroxscaffold_7G00207860
rosa_rugosa	Rorug02G0280300 Rorug02G0280400 Rorug07G0125400
rosa_samantha	Rh2AG309500 Rh2AG309600 Rh2BG318300 Rh2BG341600 Rh2CG296400 Rh2CG301400 Rh2DG333500 Rh2DG358300 Rh3AG290600 Rh3DG323500 Rh7AG256900 Rh7AG257900 Rh7BG252000 Rh7CG273400 Rh7CG274500 Rh7CG274600 Rh7DG263300 Rh7DG263400 Rh7DG263900 Rh7DG265100 Rh7DG272000
rosa_wichuraiana	Rw2G025010 Rw7G022690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	99
AciI	CCGC	3 cut(s)	44, 324, 335
AclWI	GGATC	3 cut(s)	62, 126, 181
AfaI	GTAC	1 cut(s)	38
AflII	CTTAAG	1 cut(s)	353
AgeI	ACCGGT	1 cut(s)	33
AgsI	TTSAA	2 cut(s)	8, 347
AluBI	AGCT	1 cut(s)	284
AluI	AGCT	1 cut(s)	284
AlwI	GGATC	3 cut(s)	62, 126, 181
AoxI	GGCC	1 cut(s)	277
ApeKI	GCWGC	1 cut(s)	165
AsiGI	ACCGGT	1 cut(s)	33
Asp700I	GAANNNNTTC	1 cut(s)	397
AspA2I	CCTAGG	1 cut(s)	71
AspS9I	GGNCC	1 cut(s)	277
AsuC2I	CCSGG	1 cut(s)	227
AvrII	CCTAGG	1 cut(s)	71
BbvI	GCAGC	1 cut(s)	152
BcnI	CCSGG	1 cut(s)	227
BfaI	CTAG	3 cut(s)	72, 281, 386
BfrI	CTTAAG	1 cut(s)	353
BisI	GCNGC	2 cut(s)	166, 336
BlnI	CCTAGG	1 cut(s)	71
BlsI	GCNGC	2 cut(s)	167, 337
Bme1390I	CCNGG	1 cut(s)	227
BmgT120I	GGNCC	1 cut(s)	277
BmrFI	CCNGG	1 cut(s)	227
BmsI	GCATC	1 cut(s)	142
BpuMI	CCSGG	1 cut(s)	227
BsaJI	CCNNGG	1 cut(s)	71
BsaWI	WCCGGW	1 cut(s)	33
Bse118I	RCCGGY	1 cut(s)	33
Bse1I	ACTGG	1 cut(s)	93
BseDI	CCNNGG	1 cut(s)	71
BseGI	GGATG	2 cut(s)	157, 424
BseMII	CTCAG	1 cut(s)	294
BseNI	ACTGG	1 cut(s)	93
BseXI	GCAGC	1 cut(s)	152
BshFI	GGCC	1 cut(s)	279
BshTI	ACCGGT	1 cut(s)	33
BsiSI	CCGG	2 cut(s)	34, 226
BslFI	GGGAC	1 cut(s)	242
BsmFI	GGGAC	1 cut(s)	242
BsmI	GAATGC	1 cut(s)	326
BsnI	GGCC	1 cut(s)	279
Bsp143I	GATC	3 cut(s)	67, 118, 186
BspACI	CCGC	3 cut(s)	44, 324, 335
BspANI	GGCC	1 cut(s)	279
BspCNI	CTCAG	1 cut(s)	295
BspPI	GGATC	3 cut(s)	62, 126, 181
BspTI	CTTAAG	1 cut(s)	353
BsrFI	RCCGGY	1 cut(s)	33
BsrI	ACTGG	1 cut(s)	93
BssAI	RCCGGY	1 cut(s)	33
BssECI	CCNNGG	1 cut(s)	71
BssMI	GATC	3 cut(s)	67, 118, 186
BssT1I	CCWWGG	1 cut(s)	71
Bst4CI	ACNGT	3 cut(s)	12, 368, 432
Bst6I	CTCTTC	1 cut(s)	198
BstAFI	CTTAAG	1 cut(s)	353
BstDEI	CTNAG	1 cut(s)	303
BstEII	GGTNACC	1 cut(s)	29
BstF5I	GGATG	2 cut(s)	157, 424
BstKTI	GATC	3 cut(s)	70, 121, 189
BstMBI	GATC	3 cut(s)	67, 118, 186
BstPI	GGTNACC	1 cut(s)	29
BstSCI	CCNGG	1 cut(s)	225
BstV1I	GCAGC	1 cut(s)	152
BsuRI	GGCC	1 cut(s)	279
BtsCI	GGATG	2 cut(s)	157, 424
Cfr10I	RCCGGY	1 cut(s)	33
Cfr13I	GGNCC	1 cut(s)	277
Csp6I	GTAC	1 cut(s)	37
CspAI	ACCGGT	1 cut(s)	33
CviAII	CATG	1 cut(s)	210
CviJI	RGCY	6 cut(s)	56, 165, 225, 279, 284, 389
CviKI_1	RGCY	6 cut(s)	56, 165, 225, 279, 284, 389
CviQI	GTAC	1 cut(s)	37
DdeI	CTNAG	1 cut(s)	303
DpnI	GATC	3 cut(s)	69, 120, 188
DpnII	GATC	3 cut(s)	67, 118, 186
Eam1104I	CTCTTC	1 cut(s)	198
EarI	CTCTTC	1 cut(s)	198
Eco130I	CCWWGG	1 cut(s)	71
Eco32I	GATATC	1 cut(s)	329
Eco91I	GGTNACC	1 cut(s)	29
EcoO65I	GGTNACC	1 cut(s)	29
EcoRV	GATATC	1 cut(s)	329
EcoT14I	CCWWGG	1 cut(s)	71
ErhI	CCWWGG	1 cut(s)	71
FaeI	CATG	1 cut(s)	213
FaiI	YATR	9 cut(s)	15, 17, 19, 42, 99, 107, 141, 211, 300
FaqI	GGGAC	1 cut(s)	242
FatI	CATG	1 cut(s)	209
FauI	CCCGC	1 cut(s)	37
Fnu4HI	GCNGC	2 cut(s)	166, 336
FokI	GGATG	2 cut(s)	164, 431
Fsp4HI	GCNGC	2 cut(s)	166, 336
FspBI	CTAG	3 cut(s)	72, 281, 386
GluI	GCNGC	2 cut(s)	166, 336
HaeIII	GGCC	1 cut(s)	279
HapII	CCGG	2 cut(s)	34, 226
Hin1II	CATG	1 cut(s)	213
HinfI	GANTC	2 cut(s)	126, 145
HpaII	CCGG	2 cut(s)	34, 226
Hpy188III	TCNNGA	3 cut(s)	149, 247, 344
HpyAV	CCTTC	2 cut(s)	70, 408
HpyCH4III	ACNGT	3 cut(s)	12, 368, 432
HpyCH4V	TGCA	2 cut(s)	168, 291
HpyF3I	CTNAG	1 cut(s)	303
Hsp92II	CATG	1 cut(s)	213
Kzo9I	GATC	3 cut(s)	67, 118, 186
LpnPI	CCDG	7 cut(s)	47, 74, 106, 134, 239, 387, 403
Lsp1109I	GCAGC	1 cut(s)	152
LweI	GCATC	1 cut(s)	142
MaeI	CTAG	3 cut(s)	72, 281, 386
MaeIII	GTNAC	1 cut(s)	29
MalI	GATC	3 cut(s)	69, 120, 188
MboI	GATC	3 cut(s)	67, 118, 186
MboII	GAAGA	2 cut(s)	215, 364
MfeI	CAATTG	1 cut(s)	442
MluCI	AATT	2 cut(s)	169, 442
MlyI	GAGTC	1 cut(s)	154
MnlI	CCTC	3 cut(s)	109, 199, 408
MroXI	GAANNNNTTC	1 cut(s)	397
MseI	TTAA	3 cut(s)	264, 308, 354
MspCI	CTTAAG	1 cut(s)	353
MspI	CCGG	2 cut(s)	34, 226
MspR9I	CCNGG	1 cut(s)	227
MunI	CAATTG	1 cut(s)	442
Mva1269I	GAATGC	1 cut(s)	326
NciI	CCSGG	1 cut(s)	227
NdeII	GATC	3 cut(s)	67, 118, 186
NlaIII	CATG	1 cut(s)	213
PctI	GAATGC	1 cut(s)	326
PdmI	GAANNNNTTC	1 cut(s)	397
PfeI	GAWTC	1 cut(s)	126
PinAI	ACCGGT	1 cut(s)	33
PkrI	GCNGC	2 cut(s)	167, 337
PleI	GAGTC	1 cut(s)	153
PpsI	GAGTC	1 cut(s)	153
PsiI	TTATAA	1 cut(s)	99
PspEI	GGTNACC	1 cut(s)	29
PspPI	GGNCC	1 cut(s)	277
RsaI	GTAC	1 cut(s)	38
RsaNI	GTAC	1 cut(s)	37
SaqAI	TTAA	3 cut(s)	264, 308, 354
SatI	GCNGC	2 cut(s)	166, 336
Sau3AI	GATC	3 cut(s)	67, 118, 186
Sau96I	GGNCC	1 cut(s)	277
SchI	GAGTC	1 cut(s)	154
ScrFI	CCNGG	1 cut(s)	227
SetI	ASST	2 cut(s)	286, 360
SfaNI	GCATC	1 cut(s)	142
SmlI	CTYRAG	1 cut(s)	353
SmoI	CTYRAG	1 cut(s)	353
Sse9I	AATT	2 cut(s)	169, 442
SsiI	CCGC	3 cut(s)	44, 324, 335
SspMI	CTAG	3 cut(s)	72, 281, 386
StyD4I	CCNGG	1 cut(s)	225
StyI	CCWWGG	1 cut(s)	71
TaaI	ACNGT	3 cut(s)	12, 368, 432
TaqI	TCGA	1 cut(s)	246
TasI	AATT	2 cut(s)	169, 442
TauI	GCSGC	1 cut(s)	338
TfiI	GAWTC	1 cut(s)	126
Tru1I	TTAA	3 cut(s)	264, 308, 354
Tru9I	TTAA	3 cut(s)	264, 308, 354
TseI	GCWGC	1 cut(s)	165
TspDTI	ATGAA	2 cut(s)	333, 396
Vha464I	CTTAAG	1 cut(s)	353
XmaJI	CCTAGG	1 cut(s)	71
XmnI	GAANNNNTTC	1 cut(s)	397
XspI	CTAG	3 cut(s)	72, 281, 386

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