Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Forward (+)

34923981 .. 34926342

Gene Structure 2362 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG290600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGTTTGAGCTGTGTATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTGCCCTGCTTGATCCTAGGAAGGAGTATTTCACTTCCAGTTCTAAAGTCATATCGTGCGAGGATCACGGAATCTTGGGGAGATATAAGAGTCTGGATGCTGTGGTTGGCTGCAATTATTCGAATGTTTTGATCCTTGATGATACAGAAGAGGCATGGACAAAGGAAAGCCGGGACAATCTAATCATTGTCGAGAAGTATTGTTTCTTTAGGCACAAAATGGGCCTAGCTAAATGCAAGTCTTATGCTGAGTTAAAGACTGATGAATGTGGATATCTTGCAGCACTTCTTGAAGTGCTTAAGGTAATCAACCGTATCTTCTGTGATGAACTAGCCAGAAATCCTTCTGGTGTAGATGTGAGGGATGTGTTAGAACTGTTTAGAAACAATTGTTGA

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

17.06

Weight (kDa)

5.74

Isoelectric Point (pI)

29.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	1 - 100	7.1e-10	NLI interacting factor-like phosphatase

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: 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)
AciI	CCGC	1 cut(s)	44
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	1 cut(s)	347
AluBI	AGCT	2 cut(s)	10, 284
AluI	AGCT	2 cut(s)	10, 284
AlwI	GGATC	3 cut(s)	62, 126, 181
AoxI	GGCC	1 cut(s)	277
ApeKI	GCWGC	3 cut(s)	56, 165, 335
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
AsuII	TTCGAA	1 cut(s)	176
AvrII	CCTAGG	1 cut(s)	71
BbvI	GCAGC	3 cut(s)	43, 152, 347
BcnI	CCSGG	1 cut(s)	227
BfaI	CTAG	3 cut(s)	72, 281, 386
BfrI	CTTAAG	1 cut(s)	353
BisI	GCNGC	3 cut(s)	57, 166, 336
BlnI	CCTAGG	1 cut(s)	71
BlsI	GCNGC	3 cut(s)	58, 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
Bpu14I	TTCGAA	1 cut(s)	176
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	3 cut(s)	43, 152, 347
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
BsnI	GGCC	1 cut(s)	279
Bsp119I	TTCGAA	1 cut(s)	176
Bsp143I	GATC	3 cut(s)	67, 118, 186
BspACI	CCGC	1 cut(s)	44
BspANI	GGCC	1 cut(s)	279
BspCNI	CTCAG	1 cut(s)	295
BspPI	GGATC	3 cut(s)	62, 126, 181
BspT104I	TTCGAA	1 cut(s)	176
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	2 cut(s)	368, 432
Bst6I	CTCTTC	1 cut(s)	198
BstAFI	CTTAAG	1 cut(s)	353
BstBI	TTCGAA	1 cut(s)	176
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	3 cut(s)	43, 152, 347
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	7 cut(s)	10, 56, 165, 225, 279, 284, 389
CviKI_1	RGCY	7 cut(s)	10, 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	7 cut(s)	17, 19, 42, 107, 141, 211, 300
FaqI	GGGAC	1 cut(s)	242
FatI	CATG	1 cut(s)	209
FauI	CCCGC	1 cut(s)	37
Fnu4HI	GCNGC	3 cut(s)	57, 166, 336
FokI	GGATG	2 cut(s)	164, 431
Fsp4HI	GCNGC	3 cut(s)	57, 166, 336
FspBI	CTAG	3 cut(s)	72, 281, 386
GluI	GCNGC	3 cut(s)	57, 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	2 cut(s)	368, 432
HpyCH4V	TGCA	3 cut(s)	168, 291, 335
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	3 cut(s)	43, 152, 347
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	2 cut(s)	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
NciI	CCSGG	1 cut(s)	227
NdeII	GATC	3 cut(s)	67, 118, 186
NlaIII	CATG	1 cut(s)	213
NspV	TTCGAA	1 cut(s)	176
PdmI	GAANNNNTTC	1 cut(s)	397
PfeI	GAWTC	1 cut(s)	126
PinAI	ACCGGT	1 cut(s)	33
PkrI	GCNGC	3 cut(s)	58, 167, 337
PleI	GAGTC	1 cut(s)	153
PpsI	GAGTC	1 cut(s)	153
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	2 cut(s)	308, 354
SatI	GCNGC	3 cut(s)	57, 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	3 cut(s)	12, 286, 360
SfaNI	GCATC	1 cut(s)	142
SfuI	TTCGAA	1 cut(s)	176
SmlI	CTYRAG	1 cut(s)	353
SmoI	CTYRAG	1 cut(s)	353
Sse9I	AATT	2 cut(s)	169, 442
SsiI	CCGC	1 cut(s)	44
SspMI	CTAG	3 cut(s)	72, 281, 386
StyD4I	CCNGG	1 cut(s)	225
StyI	CCWWGG	1 cut(s)	71
TaaI	ACNGT	2 cut(s)	368, 432
TaqI	TCGA	2 cut(s)	176, 246
TasI	AATT	2 cut(s)	169, 442
TfiI	GAWTC	1 cut(s)	126
Tru1I	TTAA	2 cut(s)	308, 354
Tru9I	TTAA	2 cut(s)	308, 354
TseI	GCWGC	3 cut(s)	56, 165, 335
TspDTI	ATGAA	2 cut(s)	333, 396
TspGWI	ACGGA	1 cut(s)	138
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.