Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0001341

Physical Location & Seq

Genomic Coordinates Reverse (-)

28104756 .. 28105223

Gene Structure 468 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG263900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGGCAACTCTTTCGCCGGATGTCAATGGTAATGTTTCATTTCCAAAAGCTTCTTCTTTTCAAGTTTCAAGTTGTTGTTCTAACCCTAATTTTGCCAGAGCACTGAGTTTGAATTCCAACTCCAGAAAGCTCCACTTGGTTCTTGATCTGGATCACACACTCCTCCACACCACTCAACTCTGTAATCTGACACCTGAAGAAGACTATCTCAAGAACGGAACCCATCCTCATCGAGATGTTTTCGTGCTTGAAACTGTGATCACCAAGCTCAGGCCCTTTGTCTGGAGATTCTTGGATGAAGCCAGCACGATGTTTGAGCTGTATATATACACAAAGGGTAACCGGTACTATGCGGGTCTAATGGCTGCCCTGCTTGATCCTAGGAAGCAGTATTTCCCTTCCAGTTCTAGAGTCATATCGTGCGAGGATCATGGAATCTTGGGGAGATCTGTTAGGGCTCTAATCTAA

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

155

Amino Acids

17.52

Weight (kDa)

8.38

Isoelectric Point (pI)

34.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	45 - 134	7.8e-16	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

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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)	353
AclWI	GGATC	3 cut(s)	159, 371, 435
AcsI	RAATTY	1 cut(s)	112
AcuI	CTGAAG	1 cut(s)	216
AfaI	GTAC	1 cut(s)	347
AfiI	CCNNNNNNNGG	2 cut(s)	270, 282
AgeI	ACCGGT	1 cut(s)	342
AgsI	TTSAA	4 cut(s)	62, 69, 112, 251
AjuI	GAANNNNNNNTTGG	2 cut(s)	37, 69
AluBI	AGCT	4 cut(s)	50, 130, 268, 319
AluI	AGCT	4 cut(s)	50, 130, 268, 319
Alw21I	GWGCWC	1 cut(s)	103
AlwI	GGATC	3 cut(s)	159, 371, 435
AoxI	GGCC	1 cut(s)	272
ApeKI	GCWGC	1 cut(s)	365
ApoI	RAATTY	1 cut(s)	112
AsiGI	ACCGGT	1 cut(s)	342
AspA2I	CCTAGG	1 cut(s)	380
AspS9I	GGNCC	1 cut(s)	273
AsuHPI	GGTGA	1 cut(s)	253
AvrII	CCTAGG	1 cut(s)	380
BanII	GRGCYC	1 cut(s)	460
BbsI	GAAGAC	1 cut(s)	207
Bbv12I	GWGCWC	1 cut(s)	103
BbvI	GCAGC	1 cut(s)	352
BccI	CCATC	1 cut(s)	231
BcgI	CGANNNNNNTGC	1 cut(s)	28
BclI	TGATCA	1 cut(s)	258
BfaI	CTAG	2 cut(s)	381, 408
BglII	AGATCT	1 cut(s)	446
BisI	GCNGC	1 cut(s)	366
BlnI	CCTAGG	1 cut(s)	380
BlsI	GCNGC	1 cut(s)	367
BmgT120I	GGNCC	1 cut(s)	273
BmiI	GGNNCC	1 cut(s)	220
BpiI	GAAGAC	1 cut(s)	207
BpmI	CTGGAG	2 cut(s)	106, 304
Bpu10I	CCTNAGC	1 cut(s)	269
BpuEI	CTTGAG	1 cut(s)	194
BsaBI	GATNNNNATC	1 cut(s)	150
BsaJI	CCNNGG	1 cut(s)	380
BsaWI	WCCGGW	1 cut(s)	342
Bsc4I	CCNNNNNNNGG	2 cut(s)	270, 282
Bse118I	RCCGGY	1 cut(s)	342
Bse1I	ACTGG	1 cut(s)	402
Bse8I	GATNNNNATC	1 cut(s)	150
BseDI	CCNNGG	1 cut(s)	380
BseGI	GGATG	3 cut(s)	25, 223, 301
BseJI	GATNNNNATC	1 cut(s)	150
BseLI	CCNNNNNNNGG	2 cut(s)	270, 282
BseMII	CTCAG	2 cut(s)	95, 283
BseNI	ACTGG	1 cut(s)	402
BseRI	GAGGAG	1 cut(s)	152
BseXI	GCAGC	1 cut(s)	352
BshFI	GGCC	1 cut(s)	274
BshTI	ACCGGT	1 cut(s)	342
BsiHKAI	GWGCWC	1 cut(s)	103
BsiSI	CCGG	2 cut(s)	17, 343
BslI	CCNNNNNNNGG	2 cut(s)	270, 282
BsnI	GGCC	1 cut(s)	274
Bsp1286I	GDGCHC	2 cut(s)	103, 460
Bsp143I	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
BspACI	CCGC	1 cut(s)	353
BspANI	GGCC	1 cut(s)	274
BspCNI	CTCAG	2 cut(s)	96, 282
BspLI	GGNNCC	1 cut(s)	220
BspPI	GGATC	3 cut(s)	159, 371, 435
BsrFI	RCCGGY	1 cut(s)	342
BsrI	ACTGG	1 cut(s)	402
BssAI	RCCGGY	1 cut(s)	342
BssECI	CCNNGG	1 cut(s)	380
BssMI	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
BssT1I	CCWWGG	1 cut(s)	380
Bst4CI	ACNGT	1 cut(s)	256
BstC8I	GCNNGC	1 cut(s)	304
BstDEI	CTNAG	2 cut(s)	104, 269
BstEII	GGTNACC	1 cut(s)	338
BstF5I	GGATG	3 cut(s)	25, 223, 301
BstKTI	GATC	6 cut(s)	148, 154, 261, 379, 430, 449
BstMBI	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
BstPI	GGTNACC	1 cut(s)	338
BstV1I	GCAGC	1 cut(s)	352
BstV2I	GAAGAC	1 cut(s)	207
BstX2I	RGATCY	1 cut(s)	446
BstYI	RGATCY	1 cut(s)	446
BsuRI	GGCC	1 cut(s)	274
BtsCI	GGATG	3 cut(s)	25, 223, 301
BtsIMutI	CAGTG	1 cut(s)	101
Cac8I	GCNNGC	1 cut(s)	304
Cfr10I	RCCGGY	1 cut(s)	342
Cfr13I	GGNCC	1 cut(s)	273
Csp6I	GTAC	1 cut(s)	346
CspAI	ACCGGT	1 cut(s)	342
CviAII	CATG	1 cut(s)	431
CviJI	RGCY	8 cut(s)	50, 130, 268, 274, 302, 319, 365, 458
CviKI_1	RGCY	8 cut(s)	50, 130, 268, 274, 302, 319, 365, 458
CviQI	GTAC	1 cut(s)	346
DdeI	CTNAG	2 cut(s)	104, 269
DpnI	GATC	6 cut(s)	147, 153, 260, 378, 429, 448
DpnII	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
Eco130I	CCWWGG	1 cut(s)	380
Eco24I	GRGCYC	1 cut(s)	460
Eco57I	CTGAAG	1 cut(s)	216
Eco91I	GGTNACC	1 cut(s)	338
EcoO109I	RGGNCCY	1 cut(s)	273
EcoO65I	GGTNACC	1 cut(s)	338
EcoRI	GAATTC	1 cut(s)	112
EcoT14I	CCWWGG	1 cut(s)	380
EcoT38I	GRGCYC	1 cut(s)	460
ErhI	CCWWGG	1 cut(s)	380
FaeI	CATG	1 cut(s)	434
FaiI	YATR	6 cut(s)	324, 326, 328, 351, 416, 432
FalI	AAGNNNNNCTT	2 cut(s)	119, 151
FatI	CATG	1 cut(s)	430
FauI	CCCGC	1 cut(s)	346
FbaI	TGATCA	1 cut(s)	258
Fnu4HI	GCNGC	1 cut(s)	366
FokI	GGATG	3 cut(s)	32, 210, 308
FriOI	GRGCYC	1 cut(s)	460
Fsp4HI	GCNGC	1 cut(s)	366
FspBI	CTAG	2 cut(s)	381, 408
GluI	GCNGC	1 cut(s)	366
GsuI	CTGGAG	2 cut(s)	106, 304
HaeIII	GGCC	1 cut(s)	274
HapII	CCGG	2 cut(s)	17, 343
Hin1II	CATG	1 cut(s)	434
HindIII	AAGCTT	1 cut(s)	48
HinfI	GANTC	3 cut(s)	288, 411, 435
HpaII	CCGG	2 cut(s)	17, 343
HphI	GGTGA	1 cut(s)	253
Hpy188I	TCNGA	1 cut(s)	189
Hpy188III	TCNNGA	7 cut(s)	123, 143, 149, 211, 233, 283, 408
HpyAV	CCTTC	1 cut(s)	408
HpyCH4III	ACNGT	1 cut(s)	256
HpyF3I	CTNAG	2 cut(s)	104, 269
Hsp92II	CATG	1 cut(s)	434
Ksp22I	TGATCA	1 cut(s)	258
Kzo9I	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
LmnI	GCTCC	1 cut(s)	135
Lsp1109I	GCAGC	1 cut(s)	352
MaeI	CTAG	2 cut(s)	381, 408
MaeIII	GTNAC	1 cut(s)	338
MalI	GATC	6 cut(s)	147, 153, 260, 378, 429, 448
MboI	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
MboII	GAAGA	3 cut(s)	45, 209, 212
MflI	RGATCY	1 cut(s)	446
MhlI	GDGCHC	2 cut(s)	103, 460
MluCI	AATT	2 cut(s)	88, 112
MlyI	GAGTC	1 cut(s)	420
MmeI	TCCRAC	1 cut(s)	141
MnlI	CCTC	3 cut(s)	173, 237, 418
MslI	CAYNNNNRTG	1 cut(s)	234
MspI	CCGG	2 cut(s)	17, 343
NdeII	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
NlaIII	CATG	1 cut(s)	434
NlaIV	GGNNCC	1 cut(s)	220
PfeI	GAWTC	2 cut(s)	288, 435
PinAI	ACCGGT	1 cut(s)	342
PkrI	GCNGC	1 cut(s)	367
PleI	GAGTC	1 cut(s)	419
PpsI	GAGTC	1 cut(s)	419
PspEI	GGTNACC	1 cut(s)	338
PspN4I	GGNNCC	1 cut(s)	220
PspPI	GGNCC	1 cut(s)	273
PsuI	RGATCY	1 cut(s)	446
RsaI	GTAC	1 cut(s)	347
RsaNI	GTAC	1 cut(s)	346
RseI	CAYNNNNRTG	1 cut(s)	234
SatI	GCNGC	1 cut(s)	366
Sau3AI	GATC	6 cut(s)	145, 151, 258, 376, 427, 446
Sau96I	GGNCC	1 cut(s)	273
SchI	GAGTC	1 cut(s)	420
SduI	GDGCHC	2 cut(s)	103, 460
SetI	ASST	5 cut(s)	52, 132, 196, 270, 321
SmiMI	CAYNNNNRTG	1 cut(s)	234
SmlI	CTYRAG	1 cut(s)	209
SmoI	CTYRAG	1 cut(s)	209
Sse9I	AATT	2 cut(s)	88, 112
SsiI	CCGC	1 cut(s)	353
SspMI	CTAG	2 cut(s)	381, 408
StyI	CCWWGG	1 cut(s)	380
TaaI	ACNGT	1 cut(s)	256
TaqI	TCGA	1 cut(s)	232
TasI	AATT	2 cut(s)	88, 112
TfiI	GAWTC	2 cut(s)	288, 435
TscAI	CASTG	1 cut(s)	108
TseI	GCWGC	1 cut(s)	365
TspDTI	ATGAA	2 cut(s)	27, 312
TspGWI	ACGGA	1 cut(s)	231
TspRI	CASTG	1 cut(s)	108
XapI	RAATTY	1 cut(s)	112
XbaI	TCTAGA	1 cut(s)	407
XmaJI	CCTAGG	1 cut(s)	380
XspI	CTAG	2 cut(s)	381, 408

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