Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0000835

Physical Location & Seq

Genomic Coordinates Forward (+)

27301219 .. 27305031

Gene Structure 3813 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG256100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGCTTTCTCAATCACAAGAGATTGAACGATTGAAAGAAGTGGTTGCCACTCTTTTAGCAAGATTAGAGAAAGAAGGGAATAACCACCAATCAGAGGATATTGACGCTGCAGCACACGCATTCAAGTGTCTTATTCATGCTTTCATTGATCAAGGCTTGATCGAACAGGAGCCAACTATAGTTGAAAAGCTGTGTTCTACTGTTCAAAGCTTACTTGGTTATCACAGCACAAATGCTCCTGCTCTGAGCATGGACCTTGCATTTGAAGTTGTTTCAACAATGTTTGATAAATTAGGGGCATACGCTTCTTACTTCATGAGGGGCACGCTAGAGAACTTGGCAGACATGCACAAGTTGCCTGATGAAGACTTCCCGTTTAGGAAGCCGGCCACTCTTCTTCTAGGATCCCTTGTCGAGGAGAAATGTGGGCTAAATGATGTTAATATTACTGCTGTCCTGACTCAAGGACAACTCAGGGAACTGCTTGCAGATTTTAGGGGCCTTAAATGCATATCAAGGTCGGAACTTTCTCATCGAAAACAGAAGATGGGGTTAAATATTGAGCCCTTTCTAGGAAGGGACCAGTCAGAGGAGATGAGGCCTGAGGAAGCTACAATTACAGCCATATCTGGTGCAGCGCAAATGACAAAGAAGATTAAACTCGATAGCCATGCTTCCTTAACTTCTTAA

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

229

Amino Acids

25.41

Weight (kDa)

5.3

Isoelectric Point (pI)

52.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRP12_HEAT	PF08161	34 - 139	8.8e-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)
AclWI	GGATC	2 cut(s)	399, 412
AcoI	YGGCCR	1 cut(s)	387
AfiI	CCNNNNNNNGG	4 cut(s)	94, 415, 572, 589
AgsI	TTSAA	7 cut(s)	26, 34, 124, 185, 206, 266, 276
AluBI	AGCT	3 cut(s)	190, 210, 611
AluI	AGCT	3 cut(s)	190, 210, 611
AlwI	GGATC	2 cut(s)	399, 412
AoxI	GGCC	3 cut(s)	387, 499, 599
ApeKI	GCWGC	3 cut(s)	107, 110, 635
ArsI	GACNNNNNNTTYG	2 cut(s)	245, 277
AspLEI	GCGC	1 cut(s)	640
AspS9I	GGNCC	3 cut(s)	253, 499, 580
AvaII	GGWCC	2 cut(s)	253, 580
AxyI	CCTNAGG	1 cut(s)	603
BaeGI	GKGCMC	1 cut(s)	326
BamHI	GGATCC	1 cut(s)	404
BanII	GRGCYC	1 cut(s)	567
BbsI	GAAGAC	1 cut(s)	372
BbvI	GCAGC	3 cut(s)	94, 122, 647
BccI	CCATC	1 cut(s)	541
BcgI	CGANNNNNNTGC	2 cut(s)	653, 687
BclI	TGATCA	1 cut(s)	148
BfaI	CTAG	3 cut(s)	329, 401, 572
BfmI	CTRYAG	2 cut(s)	108, 177
BisI	GCNGC	3 cut(s)	108, 111, 636
BlsI	GCNGC	3 cut(s)	109, 112, 637
Bme18I	GGWCC	2 cut(s)	253, 580
BmgT120I	GGNCC	3 cut(s)	253, 499, 580
BmiI	GGNNCC	4 cut(s)	171, 406, 500, 581
BpiI	GAAGAC	1 cut(s)	372
BpuEI	CTTGAG	1 cut(s)	447
BsaXI	ACNNNNNCTCC	2 cut(s)	220, 250
Bsc4I	CCNNNNNNNGG	4 cut(s)	94, 415, 572, 589
Bse118I	RCCGGY	1 cut(s)	385
Bse1I	ACTGG	1 cut(s)	583
Bse21I	CCTNAGG	1 cut(s)	603
BseLI	CCNNNNNNNGG	4 cut(s)	94, 415, 572, 589
BseMII	CTCAG	3 cut(s)	236, 487, 594
BseNI	ACTGG	1 cut(s)	583
BseRI	GAGGAG	2 cut(s)	431, 605
BseSI	GKGCMC	1 cut(s)	326
BseXI	GCAGC	3 cut(s)	94, 122, 647
BsgI	GTGCAG	1 cut(s)	654
BshFI	GGCC	3 cut(s)	389, 501, 601
BsiSI	CCGG	1 cut(s)	386
BslFI	GGGAC	1 cut(s)	593
BslI	CCNNNNNNNGG	4 cut(s)	94, 415, 572, 589
BsmFI	GGGAC	1 cut(s)	593
BsmI	GAATGC	1 cut(s)	119
BsnI	GGCC	3 cut(s)	389, 501, 601
Bsp1286I	GDGCHC	2 cut(s)	326, 567
Bsp143I	GATC	3 cut(s)	148, 159, 404
BspANI	GGCC	3 cut(s)	389, 501, 601
BspCNI	CTCAG	3 cut(s)	237, 486, 595
BspHI	TCATGA	1 cut(s)	315
BspLI	GGNNCC	4 cut(s)	171, 406, 500, 581
BspMAI	CTGCAG	1 cut(s)	112
BspPI	GGATC	2 cut(s)	399, 412
BsrFI	RCCGGY	1 cut(s)	385
BsrI	ACTGG	1 cut(s)	583
BssAI	RCCGGY	1 cut(s)	385
BssMI	GATC	3 cut(s)	148, 159, 404
Bst4CI	ACNGT	1 cut(s)	202
Bst6I	CTCTTC	1 cut(s)	399
BstAPI	GCANNNNNTGC	1 cut(s)	355
BstC8I	GCNNGC	3 cut(s)	326, 387, 486
BstDEI	CTNAG	3 cut(s)	245, 473, 603
BstENI	CCTNNNNNAGG	1 cut(s)	413
BstHHI	GCGC	1 cut(s)	640
BstKTI	GATC	3 cut(s)	151, 162, 407
BstMBI	GATC	3 cut(s)	148, 159, 404
BstMWI	GCNNNNNNNGC	3 cut(s)	116, 355, 507
BstNSI	RCATGY	1 cut(s)	349
BstSFI	CTRYAG	2 cut(s)	108, 177
BstSLI	GKGCMC	1 cut(s)	326
BstV1I	GCAGC	3 cut(s)	94, 122, 647
BstV2I	GAAGAC	1 cut(s)	372
BstX2I	RGATCY	1 cut(s)	404
BstYI	RGATCY	1 cut(s)	404
Bsu36I	CCTNAGG	1 cut(s)	603
BsuRI	GGCC	3 cut(s)	389, 501, 601
Cac8I	GCNNGC	3 cut(s)	326, 387, 486
CciI	TCATGA	1 cut(s)	315
CfoI	GCGC	1 cut(s)	640
Cfr10I	RCCGGY	1 cut(s)	385
Cfr13I	GGNCC	3 cut(s)	253, 499, 580
CseI	GACGC	1 cut(s)	113
CviAII	CATG	5 cut(s)	137, 250, 316, 346, 671
DdeI	CTNAG	3 cut(s)	245, 473, 603
DpnI	GATC	3 cut(s)	150, 161, 406
DpnII	GATC	3 cut(s)	148, 159, 404
EaeI	YGGCCR	1 cut(s)	387
Eam1104I	CTCTTC	1 cut(s)	399
EarI	CTCTTC	1 cut(s)	399
Eco147I	AGGCCT	1 cut(s)	601
Eco24I	GRGCYC	1 cut(s)	567
Eco47I	GGWCC	2 cut(s)	253, 580
Eco81I	CCTNAGG	1 cut(s)	603
EcoNI	CCTNNNNNAGG	1 cut(s)	413
EcoO109I	RGGNCCY	1 cut(s)	499
EcoT22I	ATGCAT	1 cut(s)	512
EcoT38I	GRGCYC	1 cut(s)	567
FaeI	CATG	5 cut(s)	140, 253, 319, 349, 674
FaiI	YATR	9 cut(s)	138, 179, 251, 301, 317, 347, 512, 626, 672
FaqI	GGGAC	1 cut(s)	593
FatI	CATG	5 cut(s)	136, 249, 315, 345, 670
FbaI	TGATCA	1 cut(s)	148
Fnu4HI	GCNGC	3 cut(s)	108, 111, 636
FriOI	GRGCYC	1 cut(s)	567
Fsp4HI	GCNGC	3 cut(s)	108, 111, 636
FspBI	CTAG	3 cut(s)	329, 401, 572
GlaI	GCGC	1 cut(s)	639
GluI	GCNGC	3 cut(s)	108, 111, 636
HaeIII	GGCC	3 cut(s)	389, 501, 601
HapII	CCGG	1 cut(s)	386
HgaI	GACGC	1 cut(s)	113
HhaI	GCGC	1 cut(s)	640
Hin1II	CATG	5 cut(s)	140, 253, 319, 349, 674
Hin6I	GCGC	1 cut(s)	638
HinP1I	GCGC	1 cut(s)	638
HindIII	AAGCTT	1 cut(s)	208
HinfI	GANTC	1 cut(s)	460
HpaII	CCGG	1 cut(s)	386
Hpy188I	TCNGA	4 cut(s)	94, 246, 523, 589
Hpy188III	TCNNGA	2 cut(s)	316, 457
HpyAV	CCTTC	2 cut(s)	68, 570
HpyCH4III	ACNGT	1 cut(s)	202
HpyCH4V	TGCA	6 cut(s)	110, 260, 349, 488, 510, 635
HpyF10VI	GCNNNNNNNGC	3 cut(s)	116, 355, 507
HpyF3I	CTNAG	3 cut(s)	245, 473, 603
Hsp92II	CATG	5 cut(s)	140, 253, 319, 349, 674
HspAI	GCGC	1 cut(s)	638
KroI	GCCGGC	1 cut(s)	385
KroNI	GCCGGC	1 cut(s)	387
Ksp22I	TGATCA	1 cut(s)	148
Kzo9I	GATC	3 cut(s)	148, 159, 404
LmnI	GCTCC	2 cut(s)	169, 241
LpnPI	CCDG	9 cut(s)	152, 252, 372, 399, 460, 470, 596, 615, 615
Lsp1109I	GCAGC	3 cut(s)	94, 122, 647
MaeI	CTAG	3 cut(s)	329, 401, 572
MalI	GATC	3 cut(s)	150, 161, 406
MboI	GATC	3 cut(s)	148, 159, 404
MboII	GAAGA	5 cut(s)	377, 386, 389, 556, 664
MflI	RGATCY	1 cut(s)	404
MhlI	GDGCHC	2 cut(s)	326, 567
MluCI	AATT	2 cut(s)	290, 615
MlyI	GAGTC	1 cut(s)	454
MmeI	TCCRAC	1 cut(s)	501
MnlI	CCTC	6 cut(s)	88, 312, 409, 583, 591, 598
Mph1103I	ATGCAT	1 cut(s)	512
MroNI	GCCGGC	1 cut(s)	385
MseI	TTAA	6 cut(s)	441, 504, 554, 657, 680, 688
MslI	CAYNNNNRTG	1 cut(s)	124
MspI	CCGG	1 cut(s)	386
Mva1269I	GAATGC	1 cut(s)	119
MwoI	GCNNNNNNNGC	3 cut(s)	116, 355, 507
NaeI	GCCGGC	1 cut(s)	387
NdeII	GATC	3 cut(s)	148, 159, 404
NgoMIV	GCCGGC	1 cut(s)	385
NlaIII	CATG	5 cut(s)	140, 253, 319, 349, 674
NlaIV	GGNNCC	4 cut(s)	171, 406, 500, 581
NsiI	ATGCAT	1 cut(s)	512
NspI	RCATGY	1 cut(s)	349
PagI	TCATGA	1 cut(s)	315
PceI	AGGCCT	1 cut(s)	601
PctI	GAATGC	1 cut(s)	119
PdiI	GCCGGC	1 cut(s)	387
PkrI	GCNGC	3 cut(s)	109, 112, 637
PleI	GAGTC	1 cut(s)	454
PpsI	GAGTC	1 cut(s)	454
PspN4I	GGNNCC	4 cut(s)	171, 406, 500, 581
PspPI	GGNCC	3 cut(s)	253, 499, 580
PstI	CTGCAG	1 cut(s)	112
PsuI	RGATCY	1 cut(s)	404
RseI	CAYNNNNRTG	1 cut(s)	124
SaqAI	TTAA	6 cut(s)	441, 504, 554, 657, 680, 688
SatI	GCNGC	3 cut(s)	108, 111, 636
Sau3AI	GATC	3 cut(s)	148, 159, 404
Sau96I	GGNCC	3 cut(s)	253, 499, 580
SchI	GAGTC	1 cut(s)	454
SduI	GDGCHC	2 cut(s)	326, 567
SetI	ASST	5 cut(s)	192, 212, 258, 521, 613
SfcI	CTRYAG	2 cut(s)	108, 177
SinI	GGWCC	2 cut(s)	253, 580
SmiMI	CAYNNNNRTG	1 cut(s)	124
SmlI	CTYRAG	1 cut(s)	462
SmoI	CTYRAG	1 cut(s)	462
Sse9I	AATT	2 cut(s)	290, 615
SseBI	AGGCCT	1 cut(s)	601
SspI	AATATT	2 cut(s)	445, 559
SspMI	CTAG	3 cut(s)	329, 401, 572
StuI	AGGCCT	1 cut(s)	601
TaaI	ACNGT	1 cut(s)	202
TaqI	TCGA	4 cut(s)	162, 414, 535, 663
TasI	AATT	2 cut(s)	290, 615
Tru1I	TTAA	6 cut(s)	441, 504, 554, 657, 680, 688
Tru9I	TTAA	6 cut(s)	441, 504, 554, 657, 680, 688
TseI	GCWGC	3 cut(s)	107, 110, 635
TspDTI	ATGAA	4 cut(s)	125, 133, 304, 378
VpaK11BI	GGWCC	2 cut(s)	253, 580
XagI	CCTNNNNNAGG	1 cut(s)	413
XceI	RCATGY	1 cut(s)	349
XspI	CTAG	3 cut(s)	329, 401, 572
Zsp2I	ATGCAT	1 cut(s)	512

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