Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0000907

Physical Location & Seq

Genomic Coordinates Reverse (-)

26725966 .. 26727189

Gene Structure 1224 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG252200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGCAGACTAGGTTAAAACGGCATAGATGGCACAAGAAAGTTCTGAAGACTAGTGATCCTATCGTTGTTTCTATTGGGTGGAGACGATACCAAACAATACCAGTTTATGCCATTGAAGATCGCAATGGAAGGCATCACAGGGTTAAGTACACTCCAGAACATATGCACTGTCTTGCCATGCTTTTGGGCCCTCTTGCACCTCCCAATACTGGTGTGGTTGCTTTCCAGAATTTATCAAACAATCAGGCAGCATTTAGGATCGCAGCAACTGCTGTTGTGCTCGAGTTCAACCACGCATCAAAGATAGAGAAGAAAGTCAAAATGGTTGGCTATCCCCGCCAGATATTCAAGAAGACAGCACTAATAGGAGACATGTTCATGTCCAATCTTGAAATAGCTCGCTTTGAAGGTGGTGCTATACAAACTGTCAGTGGTATCCGGGGGCAGGTGAAGAAGGTATGTGTTGAGAATATAGAAAAATCCTATATCTGGTTGTCCAAACCTTGCATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0000462 GO:0000469 GO:0000478 GO:0000479 GO:0001882 GO:0001883 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003924 GO:0005488 GO:0005525 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0017076 GO:0017111 GO:0019001 GO:0022613 GO:0030490 GO:0030515 GO:0030684 GO:0030686 GO:0031974 GO:0031981 GO:0032549 GO:0032550 GO:0032553 GO:0032555 GO:0032561 GO:0032991 GO:0034470 GO:0034511 GO:0034641 GO:0034660 GO:0035639 GO:0036094 GO:0042254 GO:0042274 GO:0043167 GO:0043168 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0097367 GO:1901265 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

AARP2CN RIBIOP_C

Protein Analysis

170

Amino Acids

19.41

Weight (kDa)

10.18

Isoelectric Point (pI)

41.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RIBIOP_C	PF04950	1 - 153	2.9e-52	40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal

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: OG0000907)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06720 AT1G06720 AT1G06720
fragaria_vesca	FvH4_4g10660
malus_domestica	MD00G1071300.v1.1 MD00G1152200.v1.1 MD03G1154000.v1.1
prunus_persica	Prupe.1G548200_v2.0.a1 Prupe.8G069100_v2.0.a1 Prupe.8G069100_v2.0.a1
pyrus_communis	pycom03g10780 pycom03g10790 pycom07g03680 pycom11g14630 pycom11g14640
rosa_chinensis	RchiOBHm_Chr2g0114561 RchiOBHm_Chr2g0114571 RchiOBHm_Chr4g0406311 RchiOBHm_Chr5g0051051
rosa_laevigata	RLG00000008777 RLG00000018114 RLG00000034749
rosa_multiflora	Rmu_co8051646.1_g000001 Rmu_sc0000370.1_g000003 Rmu_sc0000371.1_g000013 Rmu_sc0000446.1_g000025 Rmu_sc0000898.1_g000055 Rmu_sc0001520.1_g000010 Rmu_sc0003452.1_g000005 Rmu_sc0030223.1_g000001
rosa_roxburghii	Rroxscaffold_1G00029430 Rroxscaffold_2G00130290 Rroxscaffold_3G00239130 Rroxscaffold_3G00239160
rosa_rugosa	Rorug04G0068100 Rorug04G0068200 Rorug04G0068300 Rorug05G0265700 Rorug07G0181200 Rorug07G0181300 Rorug07G0181400 Rorug07G0181500 Rorug07G0181500 Rorug07G0181600 Rorug07G0181800
rosa_samantha	Rh2AG248700 Rh2BG258300 Rh2BG258500 Rh2CG252100 Rh2CG252200 Rh2CG252500 Rh2DG256800 Rh4AG137200 Rh4BG134800 Rh4CG145400 Rh4DG131800 Rh5AG337900 Rh5BG347600 Rh5CG375000 Rh5DG360700
rosa_wichuraiana	Rw0G006840 Rw0G023620 Rw2G019340 Rw4G011120 Rw5G031930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	436
Acc36I	ACCTGC	1 cut(s)	436
AciI	CCGC	1 cut(s)	337
AclWI	GGATC	2 cut(s)	50, 266
AcsI	RAATTY	1 cut(s)	229
AcuI	CTGAAG	1 cut(s)	65
AfaI	GTAC	1 cut(s)	149
AfiI	CCNNNNNNNGG	3 cut(s)	209, 445, 489
AflIII	ACRYGT	1 cut(s)	372
AgsI	TTSAA	5 cut(s)	116, 289, 349, 392, 407
AhlI	ACTAGT	1 cut(s)	50
AluBI	AGCT	1 cut(s)	398
AluI	AGCT	1 cut(s)	398
Alw21I	GWGCWC	1 cut(s)	282
Alw26I	GTCTC	2 cut(s)	76, 363
AlwI	GGATC	2 cut(s)	50, 266
AlwNI	CAGNNNCTG	1 cut(s)	269
Ama87I	CYCGRG	1 cut(s)	281
AoxI	GGCC	1 cut(s)	187
ApaI	GGGCCC	1 cut(s)	191
ApeKI	GCWGC	2 cut(s)	248, 263
ApoI	RAATTY	1 cut(s)	229
AspS9I	GGNCC	2 cut(s)	187, 188
AsuC2I	CCSGG	1 cut(s)	440
AsuHPI	GGTGA	1 cut(s)	460
AvaI	CYCGRG	1 cut(s)	281
BaeGI	GKGCMC	1 cut(s)	191
BanII	GRGCYC	1 cut(s)	191
BbsI	GAAGAC	2 cut(s)	53, 359
Bbv12I	GWGCWC	1 cut(s)	282
BbvI	GCAGC	2 cut(s)	260, 275
BccI	CCATC	1 cut(s)	21
BceAI	ACGGC	1 cut(s)	35
BciVI	GTATCC	1 cut(s)	446
BcnI	CCSGG	1 cut(s)	440
BcoDI	GTCTC	2 cut(s)	76, 363
BcuI	ACTAGT	1 cut(s)	50
BfaI	CTAG	2 cut(s)	9, 51
BfuAI	ACCTGC	1 cut(s)	436
BfuI	GTATCC	1 cut(s)	446
BisI	GCNGC	2 cut(s)	249, 264
BlsI	GCNGC	2 cut(s)	250, 265
Bme1390I	CCNGG	1 cut(s)	440
BmeT110I	CYCGRG	1 cut(s)	281
BmgT120I	GGNCC	2 cut(s)	187, 188
BmiI	GGNNCC	1 cut(s)	189
BmrFI	CCNGG	1 cut(s)	440
BmsI	GCATC	2 cut(s)	142, 305
BpiI	GAAGAC	2 cut(s)	53, 359
BpmI	CTGGAG	1 cut(s)	138
BpuMI	CCSGG	1 cut(s)	440
BsaJI	CCNNGG	1 cut(s)	439
Bsc4I	CCNNNNNNNGG	3 cut(s)	209, 445, 489
Bse1I	ACTGG	2 cut(s)	101, 214
Bse3DI	GCAATG	1 cut(s)	130
BseDI	CCNNGG	1 cut(s)	439
BseLI	CCNNNNNNNGG	3 cut(s)	209, 445, 489
BseMI	GCAATG	1 cut(s)	130
BseNI	ACTGG	2 cut(s)	101, 214
BseSI	GKGCMC	1 cut(s)	191
BseXI	GCAGC	2 cut(s)	260, 275
BshFI	GGCC	1 cut(s)	189
BsiHKAI	GWGCWC	1 cut(s)	282
BsiHKCI	CYCGRG	1 cut(s)	281
BsiSI	CCGG	1 cut(s)	439
BslI	CCNNNNNNNGG	3 cut(s)	209, 445, 489
BsmAI	GTCTC	2 cut(s)	76, 363
BsmBI	CGTCTC	1 cut(s)	76
BsnI	GGCC	1 cut(s)	189
BsoBI	CYCGRG	1 cut(s)	281
Bsp120I	GGGCCC	1 cut(s)	187
Bsp1286I	GDGCHC	2 cut(s)	191, 282
Bsp143I	GATC	3 cut(s)	55, 118, 258
BspACI	CCGC	1 cut(s)	337
BspANI	GGCC	1 cut(s)	189
BspLI	GGNNCC	1 cut(s)	189
BspMI	ACCTGC	1 cut(s)	436
BspPI	GGATC	2 cut(s)	50, 266
BsrDI	GCAATG	1 cut(s)	130
BsrI	ACTGG	2 cut(s)	101, 214
BssECI	CCNNGG	1 cut(s)	439
BssMI	GATC	3 cut(s)	55, 118, 258
Bst4CI	ACNGT	2 cut(s)	170, 427
BstAPI	GCANNNNNTGC	1 cut(s)	269
BstC8I	GCNNGC	1 cut(s)	400
BstKTI	GATC	3 cut(s)	58, 121, 261
BstMAI	GTCTC	2 cut(s)	76, 363
BstMBI	GATC	3 cut(s)	55, 118, 258
BstMWI	GCNNNNNNNGC	3 cut(s)	28, 269, 336
BstNSI	RCATGY	1 cut(s)	376
BstSCI	CCNGG	1 cut(s)	438
BstSLI	GKGCMC	1 cut(s)	191
BstV1I	GCAGC	2 cut(s)	260, 275
BstV2I	GAAGAC	2 cut(s)	53, 359
BstXI	CCANNNNNNTGG	1 cut(s)	184
BsuI	GTATCC	1 cut(s)	446
BsuRI	GGCC	1 cut(s)	189
BtsIMutI	CAGTG	2 cut(s)	166, 436
BveI	ACCTGC	1 cut(s)	436
Cac8I	GCNNGC	1 cut(s)	400
CaiI	CAGNNNCTG	1 cut(s)	269
Cfr13I	GGNCC	2 cut(s)	187, 188
Csp6I	GTAC	1 cut(s)	148
CviAII	CATG	3 cut(s)	178, 373, 379
CviJI	RGCY	3 cut(s)	189, 330, 398
CviKI_1	RGCY	3 cut(s)	189, 330, 398
CviQI	GTAC	1 cut(s)	148
DpnI	GATC	3 cut(s)	57, 120, 260
DpnII	GATC	3 cut(s)	55, 118, 258
Eco24I	GRGCYC	1 cut(s)	191
Eco57I	CTGAAG	1 cut(s)	65
Eco88I	CYCGRG	1 cut(s)	281
EcoO109I	RGGNCCY	1 cut(s)	188
EcoT38I	GRGCYC	1 cut(s)	191
Esp3I	CGTCTC	1 cut(s)	76
FaeI	CATG	3 cut(s)	181, 376, 382
FatI	CATG	3 cut(s)	177, 372, 378
FauI	CCCGC	1 cut(s)	344
FauNDI	CATATG	1 cut(s)	162
Fnu4HI	GCNGC	2 cut(s)	249, 264
FriOI	GRGCYC	1 cut(s)	191
Fsp4HI	GCNGC	2 cut(s)	249, 264
FspBI	CTAG	2 cut(s)	9, 51
GluI	GCNGC	2 cut(s)	249, 264
GsuI	CTGGAG	1 cut(s)	138
HaeIII	GGCC	1 cut(s)	189
HapII	CCGG	1 cut(s)	439
Hin1II	CATG	3 cut(s)	181, 376, 382
HpaII	CCGG	1 cut(s)	439
HphI	GGTGA	1 cut(s)	460
Hpy166II	GTNNAC	1 cut(s)	150
Hpy188I	TCNGA	2 cut(s)	45, 512
Hpy188III	TCNNGA	4 cut(s)	155, 226, 349, 389
Hpy8I	GTNNAC	1 cut(s)	150
HpyAV	CCTTC	3 cut(s)	123, 401, 448
HpyCH4III	ACNGT	2 cut(s)	170, 427
HpyCH4V	TGCA	4 cut(s)	4, 166, 197, 507
HpyF10VI	GCNNNNNNNGC	3 cut(s)	28, 269, 336
Hsp92II	CATG	3 cut(s)	181, 376, 382
Kzo9I	GATC	3 cut(s)	55, 118, 258
Lsp1109I	GCAGC	2 cut(s)	260, 275
LweI	GCATC	2 cut(s)	142, 305
MaeI	CTAG	2 cut(s)	9, 51
MalI	GATC	3 cut(s)	57, 120, 260
MboI	GATC	3 cut(s)	55, 118, 258
MboII	GAAGA	5 cut(s)	58, 128, 322, 364, 463
MhlI	GDGCHC	2 cut(s)	191, 282
MluCI	AATT	1 cut(s)	229
MnlI	CCTC	2 cut(s)	201, 210
MseI	TTAA	2 cut(s)	14, 144
MslI	CAYNNNNRTG	1 cut(s)	377
MspI	CCGG	1 cut(s)	439
MspR9I	CCNGG	1 cut(s)	440
MwoI	GCNNNNNNNGC	3 cut(s)	28, 269, 336
NciI	CCSGG	1 cut(s)	440
NdeI	CATATG	1 cut(s)	162
NdeII	GATC	3 cut(s)	55, 118, 258
NlaIII	CATG	3 cut(s)	181, 376, 382
NlaIV	GGNNCC	1 cut(s)	189
NspI	RCATGY	1 cut(s)	376
PaeR7I	CTCGAG	1 cut(s)	281
PaqCI	CACCTGC	1 cut(s)	436
PciI	ACATGT	1 cut(s)	372
PkrI	GCNGC	2 cut(s)	250, 265
PscI	ACATGT	1 cut(s)	372
PspN4I	GGNNCC	1 cut(s)	189
PspOMI	GGGCCC	1 cut(s)	187
PspPI	GGNCC	2 cut(s)	187, 188
PspXI	VCTCGAGB	1 cut(s)	281
PstNI	CAGNNNCTG	1 cut(s)	269
RsaI	GTAC	1 cut(s)	149
RsaNI	GTAC	1 cut(s)	148
RseI	CAYNNNNRTG	1 cut(s)	377
SaqAI	TTAA	2 cut(s)	14, 144
SatI	GCNGC	2 cut(s)	249, 264
Sau3AI	GATC	3 cut(s)	55, 118, 258
Sau96I	GGNCC	2 cut(s)	187, 188
ScrFI	CCNGG	1 cut(s)	440
SduI	GDGCHC	2 cut(s)	191, 282
SetI	ASST	7 cut(s)	14, 202, 400, 412, 450, 459, 505
SfaNI	GCATC	2 cut(s)	142, 305
Sfr274I	CTCGAG	1 cut(s)	281
SlaI	CTCGAG	1 cut(s)	281
SmiMI	CAYNNNNRTG	1 cut(s)	377
SmlI	CTYRAG	1 cut(s)	281
SmoI	CTYRAG	1 cut(s)	281
SpeI	ACTAGT	1 cut(s)	50
Sse9I	AATT	1 cut(s)	229
SsiI	CCGC	1 cut(s)	337
SspMI	CTAG	2 cut(s)	9, 51
StyD4I	CCNGG	1 cut(s)	438
TaaI	ACNGT	2 cut(s)	170, 427
TaqI	TCGA	1 cut(s)	282
TasI	AATT	1 cut(s)	229
TatI	WGTACW	1 cut(s)	147
Tru1I	TTAA	2 cut(s)	14, 144
Tru9I	TTAA	2 cut(s)	14, 144
TscAI	CASTG	2 cut(s)	173, 436
TseI	GCWGC	2 cut(s)	248, 263
TspDTI	ATGAA	1 cut(s)	367
TspRI	CASTG	2 cut(s)	173, 436
XapI	RAATTY	1 cut(s)	229
XceI	RCATGY	1 cut(s)	376
XcmI	CCANNNNNNNNNTGG	1 cut(s)	211
XhoI	CTCGAG	1 cut(s)	281
XspI	CTAG	2 cut(s)	9, 51

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