Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001898

Physical Location & Seq

Genomic Coordinates Reverse (-)

21581644 .. 21582192

Gene Structure 549 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG194400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGCGGAGCTTGCCGGCGAGTTTGGGGAAGGGGTTGGTCGGATCTGACGGCAATCCCGAACGGCAGACTCGATATGAGGCCACCGTCGCCGGAGTTTTCCACAGGTGGACCAATTACGACATTCAATTTTGGTCACCGTCTCCCTCCATGAACACTCTCTGGCGCACCGGCGGCTTCCTCACCAATAGTCACAGCCCTAAGAAGTTCAGGTCTCGTCGGAAGAAGATCGTCTTCGGACCGACTCAGCCGCCGGACTGCCTCGTGGTTTTCGACTCCGAGAGGAAGTCGTCGGTGATTCTCGAGGCGCATAGGTTGCAGGTTCCGATTGTTTCGCTTGTGGACTCGAACATGCCTATCGAGTACTACAACAAGATCACGTATCCGATTCCGTGTAATTCCTCGGTGCAATTTGTGTACCTGTTCTGCAATTTGATCACCAAGACGTTCATGCTTCAGCAAAAGAAAAGCGGCGCCGATTCTGTCGAAATTGAGACTAGGTGTGTTGGTGTTTTTGGTGCGCACCAGGTGTTTGATGTTTTGATTGAGTGA

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

182

Amino Acids

20.62

Weight (kDa)

9.25

Isoelectric Point (pI)

54.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S2	PF00318	81 - 148	7.9e-11	Ribosomal protein S2

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: OG0001898)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G03600
fragaria_vesca	FvH4_7g08140
malus_domestica	MD02G1230600.v1.1
prunus_persica	Prupe.2G107500_v2.0.a1
pyrus_communis	pycom02g19970 pycom07g06540
rosa_chinensis	RchiOBHm_Chr1g0341081 RchiOBHm_Chr1g0363821 RchiOBHm_Chr1g0383121 RchiOBHm_Chr2g0085551 RchiOBHm_Chr3g0481141 RchiOBHm_Chr5g0027611 RchiOBHm_Chr5g0054321 RchiOBHm_Chr6g0246101
rosa_laevigata	RLG00000003952 RLG00000006546 RLG00000013359 RLG00000020654 RLG00000029063
rosa_multiflora	Rmu_sc0000533.1_g000047 Rmu_sc0000821.1_g000002 Rmu_sc0001211.1_g000068 Rmu_sc0002200.1_g000002 Rmu_sc0004332.1_g000001 Rmu_sc0004577.1_g000014 Rmu_sc0008563.1_g000010 Rmu_sc0012351.1_g000004 Rmu_ssc0000190.1_g000008
rosa_roxburghii	Rroxscaffold_1G00011600 Rroxscaffold_4G00311710
rosa_rugosa	Rorug01G0160000.1 Rorug05G0092000
rosa_samantha	Rh1AG174300 Rh1BG142600 Rh1BG221400 Rh1CG162100 Rh1CG365900 Rh1DG174200 Rh1DG248400 Rh1DG383600 Rh3AG240800 Rh5AG444100 Rh5DG194400
rosa_wichuraiana	Rw1G014550 Rw4G015450 Rw5G024540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	519
Acc36I	ACCTGC	1 cut(s)	307
AccB1I	GGYRCC	1 cut(s)	470
AciI	CCGC	4 cut(s)	4, 171, 248, 468
AclWI	GGATC	1 cut(s)	49
AcuI	CTGAAG	1 cut(s)	437
AcyI	GRCGYC	1 cut(s)	471
AdeI	CACNNNGTG	1 cut(s)	526
AfaI	GTAC	2 cut(s)	362, 416
AgsI	TTSAA	1 cut(s)	125
AjnI	CCWGG	1 cut(s)	522
AluBI	AGCT	1 cut(s)	9
AluI	AGCT	1 cut(s)	9
Alw26I	GTCTC	3 cut(s)	144, 216, 485
AlwI	GGATC	1 cut(s)	49
Ama87I	CYCGRG	1 cut(s)	299
AoxI	GGCC	1 cut(s)	78
AspLEI	GCGC	4 cut(s)	165, 307, 473, 520
AspS9I	GGNCC	2 cut(s)	108, 236
AsuHPI	GGTGA	4 cut(s)	126, 172, 304, 427
AvaI	CYCGRG	1 cut(s)	299
AvaII	GGWCC	2 cut(s)	108, 236
BanI	GGYRCC	1 cut(s)	470
BauI	CACGAG	1 cut(s)	260
BbsI	GAAGAC	1 cut(s)	223
BceAI	ACGGC	2 cut(s)	64, 77
BciT130I	CCWGG	1 cut(s)	524
BciVI	GTATCC	1 cut(s)	390
BclI	TGATCA	1 cut(s)	432
BcoDI	GTCTC	3 cut(s)	144, 216, 485
BfaI	CTAG	1 cut(s)	495
BfoI	RGCGCY	1 cut(s)	474
BfuAI	ACCTGC	1 cut(s)	307
BfuI	GTATCC	1 cut(s)	390
BisI	GCNGC	3 cut(s)	172, 248, 469
BlsI	GCNGC	3 cut(s)	173, 249, 470
BmcAI	AGTACT	1 cut(s)	362
Bme1390I	CCNGG	1 cut(s)	524
Bme18I	GGWCC	2 cut(s)	108, 236
BmeT110I	CYCGRG	1 cut(s)	299
BmgT120I	GGNCC	2 cut(s)	108, 236
BmiI	GGNNCC	2 cut(s)	321, 472
BmrFI	CCNGG	1 cut(s)	524
BpiI	GAAGAC	1 cut(s)	223
BsaAI	YACGTR	1 cut(s)	378
BsaHI	GRCGYC	1 cut(s)	471
BsaI	GGTCTC	1 cut(s)	216
BsaJI	CCNNGG	1 cut(s)	399
Bse118I	RCCGGY	2 cut(s)	13, 167
BseBI	CCWGG	1 cut(s)	524
BseDI	CCNNGG	1 cut(s)	399
BseMII	CTCAG	1 cut(s)	257
BshFI	GGCC	1 cut(s)	80
BshNI	GGYRCC	1 cut(s)	470
BsiHKCI	CYCGRG	1 cut(s)	299
BsiSI	CCGG	4 cut(s)	14, 90, 168, 251
BsmAI	GTCTC	3 cut(s)	144, 216, 485
BsmBI	CGTCTC	1 cut(s)	144
BsnI	GGCC	1 cut(s)	80
Bso31I	GGTCTC	1 cut(s)	216
BsoBI	CYCGRG	1 cut(s)	299
Bsp143I	GATC	4 cut(s)	41, 225, 372, 432
BspACI	CCGC	4 cut(s)	4, 171, 248, 468
BspANI	GGCC	1 cut(s)	80
BspCNI	CTCAG	1 cut(s)	256
BspLI	GGNNCC	2 cut(s)	321, 472
BspMI	ACCTGC	1 cut(s)	307
BspPI	GGATC	1 cut(s)	49
BspT107I	GGYRCC	1 cut(s)	470
BspTNI	GGTCTC	1 cut(s)	216
BsrFI	RCCGGY	2 cut(s)	13, 167
BssAI	RCCGGY	2 cut(s)	13, 167
BssECI	CCNNGG	1 cut(s)	399
BssMI	GATC	4 cut(s)	41, 225, 372, 432
BssNI	GRCGYC	1 cut(s)	471
BssSI	CACGAG	1 cut(s)	260
Bst2BI	CACGAG	1 cut(s)	260
Bst2UI	CCWGG	1 cut(s)	524
Bst4CI	ACNGT	2 cut(s)	85, 138
BstACI	GRCGYC	1 cut(s)	471
BstAPI	GCANNNNNTGC	1 cut(s)	313
BstBAI	YACGTR	1 cut(s)	378
BstC8I	GCNNGC	2 cut(s)	11, 15
BstDEI	CTNAG	2 cut(s)	198, 243
BstEII	GGTNACC	1 cut(s)	132
BstH2I	RGCGCY	1 cut(s)	474
BstHHI	GCGC	4 cut(s)	165, 307, 473, 520
BstKTI	GATC	4 cut(s)	44, 228, 375, 435
BstMAI	GTCTC	3 cut(s)	144, 216, 485
BstMBI	GATC	4 cut(s)	41, 225, 372, 432
BstMWI	GCNNNNNNNGC	4 cut(s)	10, 86, 171, 313
BstNI	CCWGG	1 cut(s)	524
BstNSI	RCATGY	1 cut(s)	352
BstPI	GGTNACC	1 cut(s)	132
BstSCI	CCNGG	1 cut(s)	522
BstV2I	GAAGAC	1 cut(s)	223
BstX2I	RGATCY	1 cut(s)	41
BstYI	RGATCY	1 cut(s)	41
BsuI	GTATCC	1 cut(s)	390
BsuRI	GGCC	1 cut(s)	80
BveI	ACCTGC	1 cut(s)	307
Cac8I	GCNNGC	2 cut(s)	11, 15
CfoI	GCGC	4 cut(s)	165, 307, 473, 520
Cfr10I	RCCGGY	2 cut(s)	13, 167
Cfr13I	GGNCC	2 cut(s)	108, 236
CpoI	CGGWCCG	1 cut(s)	236
CsiI	ACCWGGT	1 cut(s)	522
Csp6I	GTAC	2 cut(s)	361, 415
CspI	CGGWCCG	1 cut(s)	236
CviAII	CATG	3 cut(s)	148, 349, 448
CviJI	RGCY	5 cut(s)	9, 80, 174, 195, 247
CviKI_1	RGCY	5 cut(s)	9, 80, 174, 195, 247
CviQI	GTAC	2 cut(s)	361, 415
DdeI	CTNAG	2 cut(s)	198, 243
DinI	GGCGCC	1 cut(s)	472
DpnI	GATC	4 cut(s)	43, 227, 374, 434
DpnII	GATC	4 cut(s)	41, 225, 372, 432
DraIII	CACNNNGTG	1 cut(s)	526
Eco31I	GGTCTC	1 cut(s)	216
Eco47I	GGWCC	2 cut(s)	108, 236
Eco57I	CTGAAG	1 cut(s)	437
Eco88I	CYCGRG	1 cut(s)	299
Eco91I	GGTNACC	1 cut(s)	132
EcoO65I	GGTNACC	1 cut(s)	132
EcoRII	CCWGG	1 cut(s)	522
EgeI	GGCGCC	1 cut(s)	472
EheI	GGCGCC	1 cut(s)	472
Esp3I	CGTCTC	1 cut(s)	144
FaeI	CATG	3 cut(s)	151, 352, 451
FaiI	YATR	5 cut(s)	75, 149, 309, 350, 449
FalI	AAGNNNNNCTT	2 cut(s)	215, 247
FatI	CATG	3 cut(s)	147, 348, 447
FbaI	TGATCA	1 cut(s)	432
Fnu4HI	GCNGC	3 cut(s)	172, 248, 469
Fsp4HI	GCNGC	3 cut(s)	172, 248, 469
FspAI	RTGCGCAY	1 cut(s)	519
FspBI	CTAG	1 cut(s)	495
FspI	TGCGCA	1 cut(s)	519
GlaI	GCGC	4 cut(s)	164, 306, 472, 519
GluI	GCNGC	3 cut(s)	172, 248, 469
HaeII	RGCGCY	1 cut(s)	474
HaeIII	GGCC	1 cut(s)	80
HapII	CCGG	4 cut(s)	14, 90, 168, 251
HhaI	GCGC	4 cut(s)	165, 307, 473, 520
Hin1I	GRCGYC	1 cut(s)	471
Hin1II	CATG	3 cut(s)	151, 352, 451
Hin6I	GCGC	4 cut(s)	163, 305, 471, 518
HinP1I	GCGC	4 cut(s)	163, 305, 471, 518
HinfI	GANTC	7 cut(s)	67, 241, 272, 295, 341, 385, 476
HpaII	CCGG	4 cut(s)	14, 90, 168, 251
HphI	GGTGA	4 cut(s)	126, 172, 304, 427
Hpy166II	GTNNAC	3 cut(s)	108, 340, 415
Hpy188I	TCNGA	7 cut(s)	41, 46, 219, 236, 277, 324, 384
Hpy188III	TCNNGA	2 cut(s)	56, 299
Hpy8I	GTNNAC	3 cut(s)	108, 340, 415
Hpy99I	CGWCG	3 cut(s)	89, 219, 292
HpyAV	CCTTC	1 cut(s)	22
HpyCH4III	ACNGT	2 cut(s)	85, 138
HpyCH4IV	ACGT	2 cut(s)	377, 443
HpyCH4V	TGCA	3 cut(s)	316, 406, 426
HpyF10VI	GCNNNNNNNGC	4 cut(s)	10, 86, 171, 313
HpyF3I	CTNAG	2 cut(s)	198, 243
HpySE526I	ACGT	2 cut(s)	377, 443
Hsp92I	GRCGYC	1 cut(s)	471
Hsp92II	CATG	3 cut(s)	151, 352, 451
HspAI	GCGC	4 cut(s)	163, 305, 471, 518
KasI	GGCGCC	1 cut(s)	470
KroI	GCCGGC	1 cut(s)	13
KroNI	GCCGGC	1 cut(s)	15
Ksp22I	TGATCA	1 cut(s)	432
Kzo9I	GATC	4 cut(s)	41, 225, 372, 432
LmnI	GCTCC	1 cut(s)	6
MabI	ACCWGGT	1 cut(s)	522
MaeI	CTAG	1 cut(s)	495
MaeII	ACGT	2 cut(s)	377, 443
MaeIII	GTNAC	2 cut(s)	132, 188
MalI	GATC	4 cut(s)	43, 227, 374, 434
MboI	GATC	4 cut(s)	41, 225, 372, 432
MboII	GAAGA	3 cut(s)	223, 232, 235
MflI	RGATCY	1 cut(s)	41
MluCI	AATT	6 cut(s)	112, 125, 394, 407, 427, 486
Mly113I	GGCGCC	1 cut(s)	471
MlyI	GAGTC	4 cut(s)	61, 235, 266, 335
MmeI	TCCRAC	2 cut(s)	19, 197
MnlI	CCTC	7 cut(s)	70, 154, 188, 269, 273, 295, 409
MroNI	GCCGGC	1 cut(s)	13
MspI	CCGG	4 cut(s)	14, 90, 168, 251
MspR9I	CCNGG	1 cut(s)	524
MvaI	CCWGG	1 cut(s)	524
MwoI	GCNNNNNNNGC	4 cut(s)	10, 86, 171, 313
NaeI	GCCGGC	1 cut(s)	15
NarI	GGCGCC	1 cut(s)	471
NdeII	GATC	4 cut(s)	41, 225, 372, 432
NgoMIV	GCCGGC	1 cut(s)	13
NlaIII	CATG	3 cut(s)	151, 352, 451
NlaIV	GGNNCC	2 cut(s)	321, 472
NmuCI	GTSAC	2 cut(s)	132, 188
NsbI	TGCGCA	1 cut(s)	519
NspI	RCATGY	1 cut(s)	352
PaeR7I	CTCGAG	1 cut(s)	299
PcsI	WCGNNNNNNNCGW	3 cut(s)	54, 67, 267
PdiI	GCCGGC	1 cut(s)	15
PfeI	GAWTC	3 cut(s)	295, 385, 476
PkrI	GCNGC	3 cut(s)	173, 249, 470
PleI	GAGTC	4 cut(s)	61, 235, 266, 335
PluTI	GGCGCC	1 cut(s)	474
PpsI	GAGTC	4 cut(s)	61, 235, 266, 335
Ppu21I	YACGTR	1 cut(s)	378
Psp6I	CCWGG	1 cut(s)	522
PspEI	GGTNACC	1 cut(s)	132
PspGI	CCWGG	1 cut(s)	522
PspN4I	GGNNCC	2 cut(s)	321, 472
PspPI	GGNCC	2 cut(s)	108, 236
PsuI	RGATCY	1 cut(s)	41
RsaI	GTAC	2 cut(s)	362, 416
RsaNI	GTAC	2 cut(s)	361, 415
Rsr2I	CGGWCCG	1 cut(s)	236
RsrII	CGGWCCG	1 cut(s)	236
SatI	GCNGC	3 cut(s)	172, 248, 469
Sau3AI	GATC	4 cut(s)	41, 225, 372, 432
Sau96I	GGNCC	2 cut(s)	108, 236
ScaI	AGTACT	1 cut(s)	362
SchI	GAGTC	4 cut(s)	61, 235, 266, 335
ScrFI	CCNGG	1 cut(s)	524
SexAI	ACCWGGT	1 cut(s)	522
SfoI	GGCGCC	1 cut(s)	472
Sfr274I	CTCGAG	1 cut(s)	299
SgrAI	CRCCGGYG	1 cut(s)	167
SinI	GGWCC	2 cut(s)	108, 236
SlaI	CTCGAG	1 cut(s)	299
SmlI	CTYRAG	1 cut(s)	299
SmoI	CTYRAG	1 cut(s)	299
Sse9I	AATT	6 cut(s)	112, 125, 394, 407, 427, 486
SsiI	CCGC	4 cut(s)	4, 171, 248, 468
SspDI	GGCGCC	1 cut(s)	470
SspMI	CTAG	1 cut(s)	495
StyD4I	CCNGG	1 cut(s)	522
TaaI	ACNGT	2 cut(s)	85, 138
TaiI	ACGT	2 cut(s)	380, 446
TaqI	TCGA	6 cut(s)	70, 270, 300, 344, 357, 483
TaqII	GACCGA	1 cut(s)	253
TasI	AATT	6 cut(s)	112, 125, 394, 407, 427, 486
TatI	WGTACW	1 cut(s)	360
TauI	GCSGC	3 cut(s)	174, 250, 471
TfiI	GAWTC	3 cut(s)	295, 385, 476
TseFI	GTSAC	2 cut(s)	132, 188
Tsp45I	GTSAC	2 cut(s)	132, 188
TspDTI	ATGAA	2 cut(s)	164, 436
TspGWI	ACGGA	1 cut(s)	378
VpaK11BI	GGWCC	2 cut(s)	108, 236
XceI	RCATGY	1 cut(s)	352
XhoI	CTCGAG	1 cut(s)	299
XspI	CTAG	1 cut(s)	495
ZrmI	AGTACT	1 cut(s)	362

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