Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000835

Physical Location & Seq

Genomic Coordinates Forward (+)

27859867 .. 27860502

Gene Structure 636 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG259500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGGGAAAACCTGTACAAGAGGACGACGGCCATATAGAAGAGGATATTGACGCTGCGGCACACGCATTCAAGTGTCTTATTCATGCTTTCATTGATCAAGGCTTGATCGAACAGGAGCCAACTATAGTTGAAAAGCTGTGTTATACTGTTCAAAGCTTACTTGGTTATCACAGCACAAATGCTCCTGCTCTGAGCATGGACCTTGCATTTGAAGTTGTTTCAACAATGTTTGATAAATTAGGGGCATGCGCTAATTACTTCATGAGGGGCACGCTGGAGAACTTGGCAGACATGCACAAGTTGCCTGATGAAGACTTCCCGTTTAGGAAGCAGGCCACTCTTCTTCTAGGATCCCTTGTTGAGGAGAAATGTGGGCTAAATGATGTTAATATTACTGCTGTCCAGCCTCAAGGACAACTCAGGGAACTGCTTGCAGATTTTAGGGGCCTTAAATGCATATCAAGGTCGGAACTTTCTAATCGAAAACAGAAGATGGGGTTAAATATTGAGCCCTTTCTGGGAAGGGACCGGTCAGAGGAGAAGAGGGCTGAGGAAGCTACAATTACAGCCATATCTGGTGCAGCGCAAATGACAAAGAAGATTAAACTCGATAACCAGGCTTCCTTAACTTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NUC173

Protein Analysis

211

Amino Acids

23.39

Weight (kDa)

5.09

Isoelectric Point (pI)

55.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRP12_HEAT	PF08161	17 - 121	4.2e-11	Ribosomal RNA-processing protein 12, HEAT repeats

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)

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Publication-ready

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Orthologous Genes (Group: OG0000835)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g08660 FvH4_1g08670 FvH4_1g08691 FvH4_1g08730 FvH4_1g08730 FvH4_1g08730 FvH4_1g08750 FvH4_1g21223 FvH4_5g05990 FvH4_5g06040 FvH4_7g02570
rosa_chinensis	RchiOBHm_Chr2g0094991 RchiOBHm_Chr2g0095061 RchiOBHm_Chr2g0095131
rosa_laevigata	RLG00000016526 RLG00000016535 RLG00000016538 RLG00000017601 RLG00000018151 RLG00000018152
rosa_multiflora	Rmu_co8218578.1_g000001 Rmu_co8302753.1_g000001 Rmu_co8359019.1_g000001 Rmu_sc0000784.1_g000025 Rmu_sc0003274.1_g000009 Rmu_sc0004316.1_g000009 Rmu_sc0004439.1_g000001 Rmu_sc0006422.1_g000029
rosa_roxburghii	Rroxscaffold_2G00130540 Rroxscaffold_2G00136050 Rroxscaffold_2G00146670 Rroxscaffold_2G00146700 Rroxscaffold_2G00146720 Rroxscaffold_2G00146740 Rroxscaffold_2G00146820
rosa_rugosa	Rorug02G0047600 Rorug02G0047900 Rorug02G0048300 Rorug02G0193000 Rorug02G0193100
rosa_samantha	Rh2AG094900 Rh2AG095900 Rh2AG096200 Rh2AG251600 Rh2BG095600 Rh2BG096900 Rh2BG097700 Rh2BG260900 Rh2BG261100 Rh2BG262700 Rh2BG262800 Rh2BG262900 Rh2CG097500 Rh2CG099000 Rh2CG099700 Rh2CG256100 Rh2CG256200 Rh2DG094300 Rh2DG095700 Rh2DG096400 Rh2DG097100 Rh2DG259500 Rh2DG259700 Rh7BG220800
rosa_wichuraiana	Rw2G007220 Rw2G007230 Rw2G007250 Rw2G019760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	56
AclWI	GGATC	2 cut(s)	345, 358
AcoI	YGGCCR	1 cut(s)	28
AfaI	GTAC	1 cut(s)	15
AfiI	CCNNNNNNNGG	3 cut(s)	361, 518, 535
AgeI	ACCGGT	1 cut(s)	528
AgsI	TTSAA	5 cut(s)	70, 131, 152, 212, 222
AjnI	CCWGG	1 cut(s)	615
AluBI	AGCT	3 cut(s)	136, 156, 557
AluI	AGCT	3 cut(s)	136, 156, 557
AlwI	GGATC	2 cut(s)	345, 358
AoxI	GGCC	3 cut(s)	28, 333, 445
ApeKI	GCWGC	2 cut(s)	53, 581
ArsI	GACNNNNNNTTYG	2 cut(s)	191, 223
AsiGI	ACCGGT	1 cut(s)	528
AspLEI	GCGC	2 cut(s)	251, 586
AspS9I	GGNCC	3 cut(s)	199, 445, 526
AvaII	GGWCC	2 cut(s)	199, 526
BaeGI	GKGCMC	1 cut(s)	272
BamHI	GGATCC	1 cut(s)	350
BanII	GRGCYC	1 cut(s)	513
BbsI	GAAGAC	1 cut(s)	318
BbvCI	CCTCAGC	1 cut(s)	549
BbvI	GCAGC	2 cut(s)	40, 593
BccI	CCATC	1 cut(s)	487
BceAI	ACGGC	1 cut(s)	43
BciT130I	CCWGG	1 cut(s)	617
BclI	TGATCA	1 cut(s)	94
BfaI	CTAG	1 cut(s)	347
BfmI	CTRYAG	1 cut(s)	123
BisI	GCNGC	3 cut(s)	54, 57, 582
BlsI	GCNGC	3 cut(s)	55, 58, 583
Bme1390I	CCNGG	1 cut(s)	617
Bme18I	GGWCC	2 cut(s)	199, 526
BmgT120I	GGNCC	3 cut(s)	199, 445, 526
BmiI	GGNNCC	4 cut(s)	117, 352, 446, 527
BmrFI	CCNGG	1 cut(s)	617
BpiI	GAAGAC	1 cut(s)	318
BpmI	CTGGAG	1 cut(s)	296
Bpu10I	CCTNAGC	1 cut(s)	549
BpuEI	CTTGAG	1 cut(s)	393
BsaWI	WCCGGW	1 cut(s)	528
BsaXI	ACNNNNNCTCC	2 cut(s)	166, 196
Bsc4I	CCNNNNNNNGG	3 cut(s)	361, 518, 535
Bse118I	RCCGGY	1 cut(s)	528
BseBI	CCWGG	1 cut(s)	617
BseLI	CCNNNNNNNGG	3 cut(s)	361, 518, 535
BseMII	CTCAG	3 cut(s)	182, 433, 540
BseRI	GAGGAG	2 cut(s)	377, 551
BseSI	GKGCMC	1 cut(s)	272
BseXI	GCAGC	2 cut(s)	40, 593
BsgI	GTGCAG	1 cut(s)	600
BshFI	GGCC	3 cut(s)	30, 335, 447
BshTI	ACCGGT	1 cut(s)	528
BsiSI	CCGG	1 cut(s)	529
BslFI	GGGAC	1 cut(s)	539
BslI	CCNNNNNNNGG	3 cut(s)	361, 518, 535
BsmFI	GGGAC	1 cut(s)	539
BsmI	GAATGC	1 cut(s)	65
BsnI	GGCC	3 cut(s)	30, 335, 447
Bsp1286I	GDGCHC	2 cut(s)	272, 513
Bsp1407I	TGTACA	1 cut(s)	13
Bsp143I	GATC	3 cut(s)	94, 105, 350
BspACI	CCGC	1 cut(s)	56
BspANI	GGCC	3 cut(s)	30, 335, 447
BspCNI	CTCAG	3 cut(s)	183, 432, 541
BspHI	TCATGA	1 cut(s)	261
BspLI	GGNNCC	4 cut(s)	117, 352, 446, 527
BspPI	GGATC	2 cut(s)	345, 358
BsrFI	RCCGGY	1 cut(s)	528
BsrGI	TGTACA	1 cut(s)	13
BssAI	RCCGGY	1 cut(s)	528
BssMI	GATC	3 cut(s)	94, 105, 350
Bst2UI	CCWGG	1 cut(s)	617
Bst4CI	ACNGT	1 cut(s)	148
Bst6I	CTCTTC	3 cut(s)	33, 345, 536
BstAPI	GCANNNNNTGC	1 cut(s)	301
BstAUI	TGTACA	1 cut(s)	13
BstC8I	GCNNGC	4 cut(s)	247, 272, 333, 432
BstDEI	CTNAG	3 cut(s)	191, 419, 549
BstENI	CCTNNNNNAGG	1 cut(s)	359
BstHHI	GCGC	2 cut(s)	251, 586
BstKTI	GATC	3 cut(s)	97, 108, 353
BstMBI	GATC	3 cut(s)	94, 105, 350
BstMWI	GCNNNNNNNGC	4 cut(s)	62, 301, 453, 554
BstNI	CCWGG	1 cut(s)	617
BstNSI	RCATGY	2 cut(s)	249, 295
BstSCI	CCNGG	1 cut(s)	615
BstSFI	CTRYAG	1 cut(s)	123
BstSLI	GKGCMC	1 cut(s)	272
BstV1I	GCAGC	2 cut(s)	40, 593
BstV2I	GAAGAC	1 cut(s)	318
BstX2I	RGATCY	1 cut(s)	350
BstYI	RGATCY	1 cut(s)	350
BsuRI	GGCC	3 cut(s)	30, 335, 447
Cac8I	GCNNGC	4 cut(s)	247, 272, 333, 432
CciI	TCATGA	1 cut(s)	261
CfoI	GCGC	2 cut(s)	251, 586
Cfr10I	RCCGGY	1 cut(s)	528
Cfr13I	GGNCC	3 cut(s)	199, 445, 526
CseI	GACGC	1 cut(s)	59
Csp6I	GTAC	1 cut(s)	14
CspAI	ACCGGT	1 cut(s)	528
CviAII	CATG	5 cut(s)	83, 196, 246, 262, 292
CviQI	GTAC	1 cut(s)	14
DdeI	CTNAG	3 cut(s)	191, 419, 549
DpnI	GATC	3 cut(s)	96, 107, 352
DpnII	GATC	3 cut(s)	94, 105, 350
EaeI	YGGCCR	1 cut(s)	28
Eam1104I	CTCTTC	3 cut(s)	33, 345, 536
EarI	CTCTTC	3 cut(s)	33, 345, 536
Eco24I	GRGCYC	1 cut(s)	513
Eco47I	GGWCC	2 cut(s)	199, 526
EcoNI	CCTNNNNNAGG	1 cut(s)	359
EcoO109I	RGGNCCY	1 cut(s)	445
EcoRII	CCWGG	1 cut(s)	615
EcoT22I	ATGCAT	1 cut(s)	458
EcoT38I	GRGCYC	1 cut(s)	513
FaeI	CATG	5 cut(s)	86, 199, 249, 265, 295
FaqI	GGGAC	1 cut(s)	539
FatI	CATG	5 cut(s)	82, 195, 245, 261, 291
FbaI	TGATCA	1 cut(s)	94
Fnu4HI	GCNGC	3 cut(s)	54, 57, 582
FriOI	GRGCYC	1 cut(s)	513
Fsp4HI	GCNGC	3 cut(s)	54, 57, 582
FspBI	CTAG	1 cut(s)	347
GlaI	GCGC	2 cut(s)	250, 585
GluI	GCNGC	3 cut(s)	54, 57, 582
GsuI	CTGGAG	1 cut(s)	296
HaeIII	GGCC	3 cut(s)	30, 335, 447
HapII	CCGG	1 cut(s)	529
HgaI	GACGC	1 cut(s)	59
HhaI	GCGC	2 cut(s)	251, 586
Hin1II	CATG	5 cut(s)	86, 199, 249, 265, 295
Hin6I	GCGC	2 cut(s)	249, 584
HinP1I	GCGC	2 cut(s)	249, 584
HindIII	AAGCTT	1 cut(s)	154
HpaII	CCGG	1 cut(s)	529
Hpy188I	TCNGA	3 cut(s)	192, 469, 535
Hpy188III	TCNNGA	1 cut(s)	262
Hpy99I	CGWCG	1 cut(s)	29
HpyAV	CCTTC	1 cut(s)	516
HpyCH4III	ACNGT	1 cut(s)	148
HpyCH4V	TGCA	5 cut(s)	206, 295, 434, 456, 581
HpyF10VI	GCNNNNNNNGC	4 cut(s)	62, 301, 453, 554
HpyF3I	CTNAG	3 cut(s)	191, 419, 549
Hsp92II	CATG	5 cut(s)	86, 199, 249, 265, 295
HspAI	GCGC	2 cut(s)	249, 584
Ksp22I	TGATCA	1 cut(s)	94
Kzo9I	GATC	3 cut(s)	94, 105, 350
LmnI	GCTCC	2 cut(s)	115, 187
Lsp1109I	GCAGC	2 cut(s)	40, 593
MaeI	CTAG	1 cut(s)	347
MalI	GATC	3 cut(s)	96, 107, 352
MboI	GATC	3 cut(s)	94, 105, 350
MboII	GAAGA	7 cut(s)	50, 323, 332, 335, 502, 553, 610
MflI	RGATCY	1 cut(s)	350
MhlI	GDGCHC	2 cut(s)	272, 513
MluCI	AATT	3 cut(s)	236, 253, 561
MmeI	TCCRAC	1 cut(s)	447
MnlI	CCTC	8 cut(s)	13, 34, 258, 355, 417, 529, 537, 544
Mph1103I	ATGCAT	1 cut(s)	458
MseI	TTAA	6 cut(s)	387, 450, 500, 603, 626, 634
MslI	CAYNNNNRTG	1 cut(s)	70
MspI	CCGG	1 cut(s)	529
MspR9I	CCNGG	1 cut(s)	617
Mva1269I	GAATGC	1 cut(s)	65
MvaI	CCWGG	1 cut(s)	617
MwoI	GCNNNNNNNGC	4 cut(s)	62, 301, 453, 554
NdeII	GATC	3 cut(s)	94, 105, 350
NlaIII	CATG	5 cut(s)	86, 199, 249, 265, 295
NlaIV	GGNNCC	4 cut(s)	117, 352, 446, 527
NsiI	ATGCAT	1 cut(s)	458
NspI	RCATGY	2 cut(s)	249, 295
PaeI	GCATGC	1 cut(s)	249
PagI	TCATGA	1 cut(s)	261
PctI	GAATGC	1 cut(s)	65
PinAI	ACCGGT	1 cut(s)	528
PkrI	GCNGC	3 cut(s)	55, 58, 583
Psp6I	CCWGG	1 cut(s)	615
PspGI	CCWGG	1 cut(s)	615
PspN4I	GGNNCC	4 cut(s)	117, 352, 446, 527
PspPI	GGNCC	3 cut(s)	199, 445, 526
PsuI	RGATCY	1 cut(s)	350
RsaI	GTAC	1 cut(s)	15
RsaNI	GTAC	1 cut(s)	14
RseI	CAYNNNNRTG	1 cut(s)	70
SaqAI	TTAA	6 cut(s)	387, 450, 500, 603, 626, 634
SatI	GCNGC	3 cut(s)	54, 57, 582
Sau3AI	GATC	3 cut(s)	94, 105, 350
Sau96I	GGNCC	3 cut(s)	199, 445, 526
ScrFI	CCNGG	1 cut(s)	617
SduI	GDGCHC	2 cut(s)	272, 513
SetI	ASST	6 cut(s)	13, 138, 158, 204, 467, 559
SfcI	CTRYAG	1 cut(s)	123
SinI	GGWCC	2 cut(s)	199, 526
SmiMI	CAYNNNNRTG	1 cut(s)	70
SmlI	CTYRAG	1 cut(s)	408
SmoI	CTYRAG	1 cut(s)	408
SphI	GCATGC	1 cut(s)	249
Sse9I	AATT	3 cut(s)	236, 253, 561
SsiI	CCGC	1 cut(s)	56
SspI	AATATT	2 cut(s)	391, 505
SspMI	CTAG	1 cut(s)	347
StyD4I	CCNGG	1 cut(s)	615
TaaI	ACNGT	1 cut(s)	148
TaqI	TCGA	3 cut(s)	108, 481, 609
TasI	AATT	3 cut(s)	236, 253, 561
TatI	WGTACW	1 cut(s)	13
TauI	GCSGC	1 cut(s)	59
Tru1I	TTAA	6 cut(s)	387, 450, 500, 603, 626, 634
Tru9I	TTAA	6 cut(s)	387, 450, 500, 603, 626, 634
TseI	GCWGC	2 cut(s)	53, 581
TspDTI	ATGAA	4 cut(s)	71, 79, 250, 324
VpaK11BI	GGWCC	2 cut(s)	199, 526
XagI	CCTNNNNNAGG	1 cut(s)	359
XceI	RCATGY	2 cut(s)	249, 295
XspI	CTAG	1 cut(s)	347
Zsp2I	ATGCAT	1 cut(s)	458

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