Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001989

Physical Location & Seq

Genomic Coordinates Forward (+)

47879760 .. 47922465

Gene Structure 42706 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG195000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGGTGGCCGAAAAGGGTGGTGAGAGTGCGAGCGGCCGTTGGGTTTCAGGGAGGACAGTGGTGAAGAAGGGAGGGATCTCAGGAAGCCGTTCCTGCATACTGGGAGCTGGTACCGGATGGGTTCCAGGCAATCCAGTCCTCTCTAATTCCGCTTCACTTTTGGATATTCTTCTCCGACTCAAGCAGCAATCATCGCTGATCTTGGACTCTCAATGTCAAAAGTTAAATATTCACAATGAGCGAGTGGGGCTTATAGATGAGGCTAAGAGCAGAAAGAAGAATGAGGTGCTTGTGGTTCCTTACGAATTCTTACACATGTCTACTGATGTTGAGAAAATTGAGGAGATGTTGGACAAGCTTGACAAGCTTGTTCAATGGAGGTCAACAATGGAAATTTTTGATGGGTTGACATCTCTTGACTTAATTGTTAATCAAATTGAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGATACTACAAGATCATTCAATATGATTTACACCAAGCTCCTAGGCAGTGATCAAAAATCCCAAAACAACTTCACACAAAGGAAGAGTCTTGGCTCCAGATGCTTCTCTCACTCCAGCTCATCTCTTCTGAACCACTTTGACTGCCCCAGCCTCTGCCACTTCGTCACCCAGACCGCCGCTGTCACTGCTTCATTAAGCAATTCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000313 GO:0000314 GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0005761 GO:0005763 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015935 GO:0019538 GO:0031974 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0070013 GO:0071704 GO:0098798 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko00040 ko00052 ko00500 ko00520 ko01100 ko01130 ko03010 map00040 map00052 map00500 map00520 map01100 map01130 map03010

Pfam Domains

Protein Families

Ribosomal_S2 UDPGP

Protein Analysis

239

Amino Acids

26.56

Weight (kDa)

6.39

Isoelectric Point (pI)

48.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	136 - 184	5.2e-13	Plant nuclear matrix protein 1 (NMP1)

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: OG0001989)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19450 AT1G75220
fragaria_vesca	FvH4_2g39720 FvH4_2g39720
malus_domestica	MD08G1030900.v1.1 MD15G1026400.v1.1
prunus_persica	Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1
pyrus_communis	pycom08g02430 pycom15g02240
rosa_chinensis	RchiOBHm_Chr2g0113321 RchiOBHm_Chr6g0286231 RchiOBHm_Chr6g0301141
rosa_laevigata	RLG00000011274 RLG00000023030 RLG00000029784
rosa_multiflora	Rmu_sc0000163.1_g000001 Rmu_sc0003433.1_g000002
rosa_roxburghii	Rroxscaffold_172G00445490 Rroxscaffold_1G00005260 Rroxscaffold_2G00122730 Rroxscaffold_6G00422220 Rroxscaffold_7G00167120
rosa_rugosa	Rorug02G0291400 Rorug06G0302000
rosa_samantha	Rh1CG067500 Rh1DG072300 Rh2BG617500 Rh2CG245100 Rh3DG215300 Rh4AG195000 Rh4BG151200 Rh5DG350800 Rh6AG287900 Rh6AG415200 Rh6BG422100 Rh6CG295000 Rh6CG429700 Rh6DG287000 Rh6DG415000 Rh7DG331600
rosa_wichuraiana	Rw3G027690 Rw4G014840 Rw5G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	110
AccB1I	GGYRCC	1 cut(s)	110
AccBSI	CCGCTC	1 cut(s)	33
AccI	GTMKAC	1 cut(s)	320
AciI	CCGC	4 cut(s)	33, 150, 687, 690
AclWI	GGATC	1 cut(s)	83
AcoI	YGGCCR	2 cut(s)	6, 34
AcsI	RAATTY	2 cut(s)	305, 393
AfaI	GTAC	1 cut(s)	112
AfiI	CCNNNNNNNGG	1 cut(s)	460
AflIII	ACRYGT	1 cut(s)	315
AgsI	TTSAA	2 cut(s)	374, 532
AjnI	CCWGG	1 cut(s)	124
AluBI	AGCT	5 cut(s)	107, 358, 367, 550, 630
AluI	AGCT	5 cut(s)	107, 358, 367, 550, 630
AlwI	GGATC	1 cut(s)	83
AlwNI	CAGNNNCTG	1 cut(s)	666
AoxI	GGCC	2 cut(s)	6, 34
ApeKI	GCWGC	1 cut(s)	184
ApoI	RAATTY	2 cut(s)	305, 393
ArsI	GACNNNNNNTTYG	2 cut(s)	583, 615
Asp700I	GAANNNNTTC	2 cut(s)	88, 507
Asp718I	GGTACC	1 cut(s)	110
AspA2I	CCTAGG	1 cut(s)	553
AsuHPI	GGTGA	3 cut(s)	32, 73, 670
AvrII	CCTAGG	1 cut(s)	553
BanI	GGYRCC	1 cut(s)	110
BbvI	GCAGC	1 cut(s)	196
BccI	CCATC	2 cut(s)	111, 395
BceAI	ACGGC	2 cut(s)	21, 72
BciT130I	CCWGG	1 cut(s)	126
BclI	TGATCA	1 cut(s)	562
BfaI	CTAG	2 cut(s)	512, 554
BisI	GCNGC	3 cut(s)	34, 185, 690
BlnI	CCTAGG	1 cut(s)	553
BlsI	GCNGC	3 cut(s)	35, 186, 691
Bme1390I	CCNGG	1 cut(s)	126
BmiI	GGNNCC	4 cut(s)	112, 123, 297, 607
BmrFI	CCNGG	1 cut(s)	126
BmrI	ACTGGG	1 cut(s)	110
BmsI	GCATC	1 cut(s)	602
BmuI	ACTGGG	1 cut(s)	110
BpmI	CTGGAG	2 cut(s)	592, 610
BpuEI	CTTGAG	1 cut(s)	164
BsaJI	CCNNGG	1 cut(s)	553
BsaWI	WCCGGW	1 cut(s)	113
Bsc4I	CCNNNNNNNGG	1 cut(s)	460
Bse1I	ACTGG	2 cut(s)	105, 134
BseBI	CCWGG	1 cut(s)	126
BseDI	CCNNGG	1 cut(s)	553
BseGI	GGATG	1 cut(s)	122
BseLI	CCNNNNNNNGG	1 cut(s)	460
BseMII	CTCAG	1 cut(s)	93
BseNI	ACTGG	2 cut(s)	105, 134
BseRI	GAGGAG	2 cut(s)	356, 476
BseX3I	CGGCCG	1 cut(s)	34
BseXI	GCAGC	1 cut(s)	196
BseYI	CCCAGC	1 cut(s)	659
Bsh1285I	CGRYCG	1 cut(s)	37
BshFI	GGCC	2 cut(s)	8, 36
BshNI	GGYRCC	1 cut(s)	110
BsiEI	CGRYCG	1 cut(s)	37
BsiSI	CCGG	1 cut(s)	114
BslI	CCNNNNNNNGG	1 cut(s)	460
BsnI	GGCC	2 cut(s)	8, 36
Bsp143I	GATC	4 cut(s)	75, 198, 524, 562
BspACI	CCGC	4 cut(s)	33, 150, 687, 690
BspANI	GGCC	2 cut(s)	8, 36
BspCNI	CTCAG	1 cut(s)	92
BspLI	GGNNCC	4 cut(s)	112, 123, 297, 607
BspPI	GGATC	1 cut(s)	83
BspT107I	GGYRCC	1 cut(s)	110
BsrBI	CCGCTC	1 cut(s)	33
BsrI	ACTGG	2 cut(s)	105, 134
BssECI	CCNNGG	1 cut(s)	553
BssMI	GATC	4 cut(s)	75, 198, 524, 562
BssT1I	CCWWGG	1 cut(s)	553
Bst2UI	CCWGG	1 cut(s)	126
Bst4CI	ACNGT	1 cut(s)	58
Bst6I	CTCTTC	2 cut(s)	590, 642
BstC8I	GCNNGC	2 cut(s)	31, 444
BstDEI	CTNAG	2 cut(s)	79, 264
BstF5I	GGATG	1 cut(s)	122
BstKTI	GATC	4 cut(s)	78, 201, 527, 565
BstMBI	GATC	4 cut(s)	75, 198, 524, 562
BstMCI	CGRYCG	1 cut(s)	37
BstMWI	GCNNNNNNNGC	6 cut(s)	93, 193, 247, 364, 612, 698
BstNI	CCWGG	1 cut(s)	126
BstNSI	RCATGY	2 cut(s)	319, 446
BstSCI	CCNGG	1 cut(s)	124
BstV1I	GCAGC	1 cut(s)	196
BstX2I	RGATCY	1 cut(s)	75
BstYI	RGATCY	1 cut(s)	75
BstZI	CGGCCG	1 cut(s)	34
BsuRI	GGCC	2 cut(s)	8, 36
BtgZI	GCGATG	1 cut(s)	177
BtsCI	GGATG	1 cut(s)	122
BtsI	GCAGTG	2 cut(s)	565, 696
BtsIMutI	CAGTG	3 cut(s)	63, 565, 696
Cac8I	GCNNGC	2 cut(s)	31, 444
CaiI	CAGNNNCTG	1 cut(s)	666
Csp6I	GTAC	1 cut(s)	111
CviAII	CATG	2 cut(s)	316, 443
CviQI	GTAC	1 cut(s)	111
DdeI	CTNAG	2 cut(s)	79, 264
DpnI	GATC	4 cut(s)	77, 200, 526, 564
DpnII	GATC	4 cut(s)	75, 198, 524, 562
EaeI	YGGCCR	2 cut(s)	6, 34
EagI	CGGCCG	1 cut(s)	34
Eam1104I	CTCTTC	2 cut(s)	590, 642
EarI	CTCTTC	2 cut(s)	590, 642
EclXI	CGGCCG	1 cut(s)	34
Eco130I	CCWWGG	1 cut(s)	553
Eco52I	CGGCCG	1 cut(s)	34
EcoRI	GAATTC	1 cut(s)	305
EcoRII	CCWGG	1 cut(s)	124
EcoT14I	CCWWGG	1 cut(s)	553
ErhI	CCWWGG	1 cut(s)	553
FaeI	CATG	2 cut(s)	319, 446
FaiI	YATR	7 cut(s)	98, 254, 317, 444, 468, 536, 718
FatI	CATG	2 cut(s)	315, 442
FbaI	TGATCA	1 cut(s)	562
FblI	GTMKAC	1 cut(s)	320
Fnu4HI	GCNGC	3 cut(s)	34, 185, 690
FokI	GGATG	1 cut(s)	129
Fsp4HI	GCNGC	3 cut(s)	34, 185, 690
FspBI	CTAG	2 cut(s)	512, 554
GluI	GCNGC	3 cut(s)	34, 185, 690
GsaI	CCCAGC	1 cut(s)	663
GsuI	CTGGAG	2 cut(s)	592, 610
HaeIII	GGCC	2 cut(s)	8, 36
HapII	CCGG	1 cut(s)	114
Hin1II	CATG	2 cut(s)	319, 446
HincII	GTYRAC	2 cut(s)	384, 408
HindII	GTYRAC	2 cut(s)	384, 408
HindIII	AAGCTT	2 cut(s)	356, 365
HinfI	GANTC	5 cut(s)	177, 206, 479, 503, 598
HpaII	CCGG	1 cut(s)	114
HphI	GGTGA	3 cut(s)	32, 73, 670
Hpy166II	GTNNAC	4 cut(s)	321, 384, 408, 494
Hpy188I	TCNGA	2 cut(s)	176, 642
Hpy188III	TCNNGA	5 cut(s)	81, 416, 483, 512, 609
Hpy8I	GTNNAC	4 cut(s)	321, 384, 408, 494
HpyAV	CCTTC	1 cut(s)	61
HpyCH4III	ACNGT	1 cut(s)	58
HpyCH4V	TGCA	2 cut(s)	96, 470
HpyF10VI	GCNNNNNNNGC	6 cut(s)	93, 193, 247, 364, 612, 698
HpyF3I	CTNAG	2 cut(s)	79, 264
Hsp92II	CATG	2 cut(s)	319, 446
KpnI	GGTACC	1 cut(s)	114
Ksp22I	TGATCA	1 cut(s)	562
Kzo9I	GATC	4 cut(s)	75, 198, 524, 562
LmnI	GCTCC	3 cut(s)	104, 555, 611
Lsp1109I	GCAGC	1 cut(s)	196
LweI	GCATC	1 cut(s)	602
MaeI	CTAG	2 cut(s)	512, 554
MaeIII	GTNAC	2 cut(s)	676, 694
MalI	GATC	4 cut(s)	77, 200, 526, 564
MbiI	CCGCTC	1 cut(s)	33
MboI	GATC	4 cut(s)	75, 198, 524, 562
MboII	GAAGA	5 cut(s)	76, 161, 289, 607, 629
MflI	RGATCY	1 cut(s)	75
MluCI	AATT	7 cut(s)	145, 305, 336, 393, 423, 435, 712
MlyI	GAGTC	3 cut(s)	171, 200, 607
MmeI	TCCRAC	2 cut(s)	199, 330
MroXI	GAANNNNTTC	2 cut(s)	88, 507
MseI	TTAA	4 cut(s)	224, 422, 429, 707
MspA1I	CMGCKG	1 cut(s)	692
MspI	CCGG	1 cut(s)	114
MspR9I	CCNGG	1 cut(s)	126
MvaI	CCWGG	1 cut(s)	126
MwoI	GCNNNNNNNGC	6 cut(s)	93, 193, 247, 364, 612, 698
NdeII	GATC	4 cut(s)	75, 198, 524, 562
NlaIII	CATG	2 cut(s)	319, 446
NlaIV	GGNNCC	4 cut(s)	112, 123, 297, 607
NmuCI	GTSAC	2 cut(s)	676, 694
NspI	RCATGY	2 cut(s)	319, 446
PaeI	GCATGC	1 cut(s)	446
PciI	ACATGT	1 cut(s)	315
PdmI	GAANNNNTTC	2 cut(s)	88, 507
PfeI	GAWTC	2 cut(s)	479, 503
PkrI	GCNGC	3 cut(s)	35, 186, 691
PleI	GAGTC	3 cut(s)	171, 200, 606
PpsI	GAGTC	3 cut(s)	171, 200, 606
PscI	ACATGT	1 cut(s)	315
Psp6I	CCWGG	1 cut(s)	124
PspFI	CCCAGC	1 cut(s)	659
PspGI	CCWGG	1 cut(s)	124
PspN4I	GGNNCC	4 cut(s)	112, 123, 297, 607
PstNI	CAGNNNCTG	1 cut(s)	666
PsuI	RGATCY	1 cut(s)	75
RsaI	GTAC	1 cut(s)	112
RsaNI	GTAC	1 cut(s)	111
SaqAI	TTAA	4 cut(s)	224, 422, 429, 707
SatI	GCNGC	3 cut(s)	34, 185, 690
Sau3AI	GATC	4 cut(s)	75, 198, 524, 562
SchI	GAGTC	3 cut(s)	171, 200, 607
ScrFI	CCNGG	1 cut(s)	126
SetI	ASST	8 cut(s)	109, 288, 360, 369, 383, 477, 552, 632
SfaNI	GCATC	1 cut(s)	602
SmlI	CTYRAG	1 cut(s)	179
SmoI	CTYRAG	1 cut(s)	179
SphI	GCATGC	1 cut(s)	446
Sse9I	AATT	7 cut(s)	145, 305, 336, 393, 423, 435, 712
SsiI	CCGC	4 cut(s)	33, 150, 687, 690
SspI	AATATT	1 cut(s)	229
SspMI	CTAG	2 cut(s)	512, 554
StyD4I	CCNGG	1 cut(s)	124
StyI	CCWWGG	1 cut(s)	553
TaaI	ACNGT	1 cut(s)	58
TasI	AATT	7 cut(s)	145, 305, 336, 393, 423, 435, 712
TauI	GCSGC	2 cut(s)	36, 692
TfiI	GAWTC	2 cut(s)	479, 503
Tru1I	TTAA	4 cut(s)	224, 422, 429, 707
Tru9I	TTAA	4 cut(s)	224, 422, 429, 707
TscAI	CASTG	3 cut(s)	63, 565, 703
TseFI	GTSAC	2 cut(s)	676, 694
TseI	GCWGC	1 cut(s)	184
Tsp45I	GTSAC	2 cut(s)	676, 694
TspDTI	ATGAA	2 cut(s)	693, 705
TspRI	CASTG	3 cut(s)	63, 565, 703
XapI	RAATTY	2 cut(s)	305, 393
XbaI	TCTAGA	1 cut(s)	511
XceI	RCATGY	2 cut(s)	319, 446
XmaJI	CCTAGG	1 cut(s)	553
XmiI	GTMKAC	1 cut(s)	320
XmnI	GAANNNNTTC	2 cut(s)	88, 507
XspI	CTAG	2 cut(s)	512, 554

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