Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002364

Physical Location & Seq

Genomic Coordinates Forward (+)

53072404 .. 53074760

Gene Structure 2357 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG308700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGTTGGCCGCTCTACGCTCCCGATCGTCGTCCTCACTGCTTCTTCAGCGATGGAGGCTAGGGTTTCCATCTCTGCACCAGGCCTTCTCCGCCGCCGCAGCCAAGGAAGGCCTGCTCGATCTCCAGGAGGTCGAGACGGTTCTCAGCGACGTCAAGGCCGACGACGTCAAGGTCATACCGGCGAACAAGCACTGCGAGTGGGCCGATTTCATGGTCCTCGCCACCGGAAGGTCCACCTGGCACGTCAAGAACATCGCCCAAGCCCTAATTTACAAGTCTAAGCAAAAGCAGAAAGGAGCTCAGCGCTTGGTGCTTCCCACTGTTGAAGGGCAAGAGGGAGGAAAGTGGATTGTCATCGACTCTGGTTTGTGCTCTGCTCTTTCGTCTATCATCATCGTTGTTGGTGCTCTAAGAGCAATGTTGGTTTTAAATTATGCACATCTTTGTTTGGTACAACCACATCAGAATAGTTGGAGAACTAAGAAGTTCATATATTCACATGGCAGCAATCTTTTCTGGCCATCGATGTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006417 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0017148 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032268 GO:0032269 GO:0034248 GO:0034249 GO:0043021 GO:0043023 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044087 GO:0044424 GO:0044444 GO:0044464 GO:0044877 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0060255 GO:0065007 GO:0080090 GO:0090069 GO:0090071 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RsfS

Protein Analysis

177

Amino Acids

19.65

Weight (kDa)

9.64

Isoelectric Point (pI)

42.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RsfS	PF02410	43 - 122	4.8e-14	Ribosomal silencing factor during starvation

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002364)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G67620
fragaria_vesca	FvH4_4g24330 FvH4_4g24330 FvH4_4g24330 FvH4_4g24330 FvH4_4g24330 FvH4_4g24330
malus_domestica	MD13G1112100.v1.1 MD16G1111700.v1.1
prunus_persica	Prupe.1G233300_v2.0.a1
pyrus_communis	pycom13g09750 pycom16g09470
rosa_chinensis	RchiOBHm_Chr1g0343341 RchiOBHm_Chr1g0366581 RchiOBHm_Chr3g0456071 RchiOBHm_Chr4g0431131 RchiOBHm_Chr7g0183971 RchiOBHm_Chr7g0198741
rosa_laevigata	RLG00000006921
rosa_multiflora	Rmu_sc0005258.1_g000002 Rmu_sc0014629.1_g000007 Rmu_sc0023228.1_g000001
rosa_roxburghii	Rroxscaffold_1G00015160 Rroxscaffold_5G00372730 Rroxscaffold_7G00210320
rosa_rugosa	Rorug04G0248600
rosa_samantha	Rh1CG146700 Rh1CG169800 Rh3AG217500 Rh3DG326500 Rh4AG304900 Rh4BG312100 Rh4CG328400 Rh4DG308700 Rh5AG537300 Rh6BG131200 Rh6DG116800
rosa_wichuraiana	Rw1G009740 Rw4G026500 Rw5G039480 Rw6G009530 Rw6G012160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	170
AatII	GACGTC	2 cut(s)	153, 168
AccBSI	CCGCTC	1 cut(s)	11
AciI	CCGC	4 cut(s)	9, 90, 93, 96
AcoI	YGGCCR	2 cut(s)	6, 518
AcuI	CTGAAG	1 cut(s)	29
AcyI	GRCGYC	2 cut(s)	150, 165
AfaI	GTAC	1 cut(s)	453
AfeI	AGCGCT	1 cut(s)	305
AfiI	CCNNNNNNNGG	1 cut(s)	228
AgsI	TTSAA	1 cut(s)	326
AjiI	CACGTC	1 cut(s)	244
AjnI	CCWGG	3 cut(s)	78, 123, 236
AluBI	AGCT	1 cut(s)	299
AluI	AGCT	1 cut(s)	299
Alw21I	GWGCWC	3 cut(s)	301, 374, 409
Alw26I	GTCTC	1 cut(s)	128
Aor51HI	AGCGCT	1 cut(s)	305
AoxI	GGCC	6 cut(s)	6, 81, 109, 156, 201, 518
ApeKI	GCWGC	2 cut(s)	98, 504
AspLEI	GCGC	1 cut(s)	306
AspS9I	GGNCC	3 cut(s)	201, 214, 231
AvaII	GGWCC	2 cut(s)	214, 231
BalI	TGGCCA	1 cut(s)	520
BanII	GRGCYC	1 cut(s)	301
Bbv12I	GWGCWC	3 cut(s)	301, 374, 409
BbvI	GCAGC	2 cut(s)	110, 516
BccI	CCATC	3 cut(s)	45, 76, 529
BciT130I	CCWGG	3 cut(s)	80, 125, 238
BcoDI	GTCTC	1 cut(s)	128
BfaI	CTAG	1 cut(s)	59
BfoI	RGCGCY	1 cut(s)	307
BisI	GCNGC	5 cut(s)	9, 93, 96, 99, 505
BlpI	GCTNAGC	1 cut(s)	300
BlsI	GCNGC	5 cut(s)	10, 94, 97, 100, 506
Bme1390I	CCNGG	3 cut(s)	80, 125, 238
Bme18I	GGWCC	2 cut(s)	214, 231
BmgBI	CACGTC	1 cut(s)	244
BmgT120I	GGNCC	3 cut(s)	201, 214, 231
BmrFI	CCNGG	3 cut(s)	80, 125, 238
BpmI	CTGGAG	1 cut(s)	107
Bpu1102I	GCTNAGC	1 cut(s)	300
Bsa29I	ATCGAT	1 cut(s)	524
BsaBI	GATNNNNATC	1 cut(s)	353
BsaHI	GRCGYC	2 cut(s)	150, 165
BsaJI	CCNNGG	1 cut(s)	102
BsaWI	WCCGGW	1 cut(s)	224
Bsc4I	CCNNNNNNNGG	1 cut(s)	228
Bse118I	RCCGGY	1 cut(s)	178
Bse3DI	GCAATG	1 cut(s)	423
Bse8I	GATNNNNATC	1 cut(s)	353
BseBI	CCWGG	3 cut(s)	80, 125, 238
BseCI	ATCGAT	1 cut(s)	524
BseDI	CCNNGG	1 cut(s)	102
BseJI	GATNNNNATC	1 cut(s)	353
BseLI	CCNNNNNNNGG	1 cut(s)	228
BseMI	GCAATG	1 cut(s)	423
BseMII	CTCAG	2 cut(s)	157, 314
BseXI	GCAGC	2 cut(s)	110, 516
BsgI	GTGCAG	1 cut(s)	59
Bsh1285I	CGRYCG	1 cut(s)	26
BshFI	GGCC	6 cut(s)	8, 83, 111, 158, 203, 520
BshVI	ATCGAT	1 cut(s)	524
BsiEI	CGRYCG	1 cut(s)	26
BsiHKAI	GWGCWC	3 cut(s)	301, 374, 409
BsiSI	CCGG	2 cut(s)	179, 225
BslI	CCNNNNNNNGG	1 cut(s)	228
BsmAI	GTCTC	1 cut(s)	128
BsmBI	CGTCTC	1 cut(s)	128
BsnI	GGCC	6 cut(s)	8, 83, 111, 158, 203, 520
Bsp1286I	GDGCHC	3 cut(s)	301, 374, 409
Bsp143I	GATC	2 cut(s)	23, 118
Bsp1720I	GCTNAGC	1 cut(s)	300
BspACI	CCGC	4 cut(s)	9, 90, 93, 96
BspANI	GGCC	6 cut(s)	8, 83, 111, 158, 203, 520
BspCNI	CTCAG	2 cut(s)	156, 313
BspDI	ATCGAT	1 cut(s)	524
BsrBI	CCGCTC	1 cut(s)	11
BsrDI	GCAATG	1 cut(s)	423
BsrFI	RCCGGY	1 cut(s)	178
BssAI	RCCGGY	1 cut(s)	178
BssECI	CCNNGG	1 cut(s)	102
BssMI	GATC	2 cut(s)	23, 118
BssNI	GRCGYC	2 cut(s)	150, 165
BssT1I	CCWWGG	1 cut(s)	102
Bst2UI	CCWGG	3 cut(s)	80, 125, 238
Bst4CI	ACNGT	2 cut(s)	139, 322
BstACI	GRCGYC	2 cut(s)	150, 165
BstC8I	GCNNGC	1 cut(s)	113
BstDEI	CTNAG	5 cut(s)	143, 279, 300, 410, 480
BstH2I	RGCGCY	1 cut(s)	307
BstHHI	GCGC	1 cut(s)	306
BstKTI	GATC	2 cut(s)	26, 121
BstMAI	GTCTC	1 cut(s)	128
BstMBI	GATC	2 cut(s)	23, 118
BstMCI	CGRYCG	1 cut(s)	26
BstMWI	GCNNNNNNNGC	6 cut(s)	46, 55, 89, 98, 310, 413
BstNI	CCWGG	3 cut(s)	80, 125, 238
BstSCI	CCNGG	3 cut(s)	78, 123, 236
BstV1I	GCAGC	2 cut(s)	110, 516
Bsu15I	ATCGAT	1 cut(s)	524
BsuRI	GGCC	6 cut(s)	8, 83, 111, 158, 203, 520
BsuTUI	ATCGAT	1 cut(s)	524
BtgZI	GCGATG	2 cut(s)	64, 238
BtrI	CACGTC	1 cut(s)	244
BtsI	GCAGTG	2 cut(s)	35, 190
BtsIMutI	CAGTG	3 cut(s)	35, 190, 318
Cac8I	GCNNGC	1 cut(s)	113
CfoI	GCGC	1 cut(s)	306
Cfr10I	RCCGGY	1 cut(s)	178
Cfr13I	GGNCC	3 cut(s)	201, 214, 231
ClaI	ATCGAT	1 cut(s)	524
Csp6I	GTAC	1 cut(s)	452
CviAII	CATG	2 cut(s)	211, 500
CviQI	GTAC	1 cut(s)	452
DdeI	CTNAG	5 cut(s)	143, 279, 300, 410, 480
DpnI	GATC	2 cut(s)	25, 120
DpnII	GATC	2 cut(s)	23, 118
DraI	TTTAAA	1 cut(s)	429
DrdI	GACNNNNNNGTC	1 cut(s)	170
DseDI	GACNNNNNNGTC	1 cut(s)	170
EaeI	YGGCCR	2 cut(s)	6, 518
EciI	GGCGGA	1 cut(s)	79
Ecl136II	GAGCTC	1 cut(s)	299
Eco130I	CCWWGG	1 cut(s)	102
Eco147I	AGGCCT	2 cut(s)	83, 111
Eco24I	GRGCYC	1 cut(s)	301
Eco47I	GGWCC	2 cut(s)	214, 231
Eco47III	AGCGCT	1 cut(s)	305
Eco53kI	GAGCTC	1 cut(s)	299
Eco57I	CTGAAG	1 cut(s)	29
EcoICRI	GAGCTC	1 cut(s)	299
EcoRII	CCWGG	3 cut(s)	78, 123, 236
EcoT14I	CCWWGG	1 cut(s)	102
EcoT38I	GRGCYC	1 cut(s)	301
ErhI	CCWWGG	1 cut(s)	102
Esp3I	CGTCTC	1 cut(s)	128
FaeI	CATG	2 cut(s)	214, 503
FaiI	YATR	6 cut(s)	176, 212, 435, 491, 493, 501
FatI	CATG	2 cut(s)	210, 499
Fnu4HI	GCNGC	5 cut(s)	9, 93, 96, 99, 505
FriOI	GRGCYC	1 cut(s)	301
Fsp4HI	GCNGC	5 cut(s)	9, 93, 96, 99, 505
FspBI	CTAG	1 cut(s)	59
GlaI	GCGC	1 cut(s)	305
GluI	GCNGC	5 cut(s)	9, 93, 96, 99, 505
GsuI	CTGGAG	1 cut(s)	107
HaeII	RGCGCY	1 cut(s)	307
HaeIII	GGCC	6 cut(s)	8, 83, 111, 158, 203, 520
HapII	CCGG	2 cut(s)	179, 225
HhaI	GCGC	1 cut(s)	306
Hin1I	GRCGYC	2 cut(s)	150, 165
Hin1II	CATG	2 cut(s)	214, 503
Hin6I	GCGC	1 cut(s)	304
HinP1I	GCGC	1 cut(s)	304
HinfI	GANTC	1 cut(s)	359
HpaII	CCGG	2 cut(s)	179, 225
Hpy166II	GTNNAC	1 cut(s)	234
Hpy188I	TCNGA	1 cut(s)	465
Hpy188III	TCNNGA	3 cut(s)	21, 133, 247
Hpy8I	GTNNAC	1 cut(s)	234
Hpy99I	CGWCG	4 cut(s)	31, 152, 164, 167
HpyAV	CCTTC	4 cut(s)	94, 101, 222, 320
HpyCH4III	ACNGT	2 cut(s)	139, 322
HpyCH4IV	ACGT	3 cut(s)	150, 165, 243
HpyCH4V	TGCA	2 cut(s)	76, 437
HpyF10VI	GCNNNNNNNGC	6 cut(s)	46, 55, 89, 98, 310, 413
HpyF3I	CTNAG	5 cut(s)	143, 279, 300, 410, 480
HpySE526I	ACGT	3 cut(s)	150, 165, 243
Hsp92I	GRCGYC	2 cut(s)	150, 165
Hsp92II	CATG	2 cut(s)	214, 503
HspAI	GCGC	1 cut(s)	304
Kzo9I	GATC	2 cut(s)	23, 118
LmnI	GCTCC	2 cut(s)	23, 296
Lsp1109I	GCAGC	2 cut(s)	110, 516
MaeI	CTAG	1 cut(s)	59
MaeII	ACGT	3 cut(s)	150, 165, 243
MalI	GATC	2 cut(s)	25, 120
MbiI	CCGCTC	1 cut(s)	11
MboI	GATC	2 cut(s)	23, 118
MboII	GAAGA	1 cut(s)	35
MhlI	GDGCHC	3 cut(s)	301, 374, 409
MlsI	TGGCCA	1 cut(s)	520
MluCI	AATT	2 cut(s)	267, 430
MluNI	TGGCCA	1 cut(s)	520
MlyI	GAGTC	1 cut(s)	353
MmeI	TCCRAC	1 cut(s)	452
MnlI	CCTC	6 cut(s)	43, 48, 121, 227, 328, 332
Mox20I	TGGCCA	1 cut(s)	520
MscI	TGGCCA	1 cut(s)	520
MseI	TTAA	1 cut(s)	428
Msp20I	TGGCCA	1 cut(s)	520
MspI	CCGG	2 cut(s)	179, 225
MspR9I	CCNGG	3 cut(s)	80, 125, 238
MvaI	CCWGG	3 cut(s)	80, 125, 238
MwoI	GCNNNNNNNGC	6 cut(s)	46, 55, 89, 98, 310, 413
NdeII	GATC	2 cut(s)	23, 118
NlaIII	CATG	2 cut(s)	214, 503
PceI	AGGCCT	2 cut(s)	83, 111
PcsI	WCGNNNNNNNCGW	1 cut(s)	156
PflFI	GACNNNGTC	1 cut(s)	164
PfoI	TCCNGGA	1 cut(s)	123
PkrI	GCNGC	5 cut(s)	10, 94, 97, 100, 506
Ple19I	CGATCG	1 cut(s)	26
PleI	GAGTC	1 cut(s)	353
PpsI	GAGTC	1 cut(s)	353
Psp124BI	GAGCTC	1 cut(s)	301
Psp6I	CCWGG	3 cut(s)	78, 123, 236
PspGI	CCWGG	3 cut(s)	78, 123, 236
PspPI	GGNCC	3 cut(s)	201, 214, 231
PsyI	GACNNNGTC	1 cut(s)	164
PvuI	CGATCG	1 cut(s)	26
RsaI	GTAC	1 cut(s)	453
RsaNI	GTAC	1 cut(s)	452
SacI	GAGCTC	1 cut(s)	301
SaqAI	TTAA	1 cut(s)	428
SatI	GCNGC	5 cut(s)	9, 93, 96, 99, 505
Sau3AI	GATC	2 cut(s)	23, 118
Sau96I	GGNCC	3 cut(s)	201, 214, 231
SchI	GAGTC	1 cut(s)	353
ScrFI	CCNGG	3 cut(s)	80, 125, 238
SduI	GDGCHC	3 cut(s)	301, 374, 409
SetI	ASST	8 cut(s)	132, 153, 168, 174, 233, 239, 246, 301
SinI	GGWCC	2 cut(s)	214, 231
Sse9I	AATT	2 cut(s)	267, 430
SseBI	AGGCCT	2 cut(s)	83, 111
SsiI	CCGC	4 cut(s)	9, 90, 93, 96
SspMI	CTAG	1 cut(s)	59
SstI	GAGCTC	1 cut(s)	301
StuI	AGGCCT	2 cut(s)	83, 111
StyD4I	CCNGG	3 cut(s)	78, 123, 236
StyI	CCWWGG	1 cut(s)	102
TaaI	ACNGT	2 cut(s)	139, 322
TaiI	ACGT	3 cut(s)	153, 168, 246
TaqI	TCGA	4 cut(s)	117, 132, 357, 524
TasI	AATT	2 cut(s)	267, 430
TauI	GCSGC	3 cut(s)	11, 95, 98
Tru1I	TTAA	1 cut(s)	428
Tru9I	TTAA	1 cut(s)	428
TscAI	CASTG	3 cut(s)	42, 197, 325
TseI	GCWGC	2 cut(s)	98, 504
TspDTI	ATGAA	2 cut(s)	199, 478
TspRI	CASTG	3 cut(s)	42, 197, 325
Tth111I	GACNNNGTC	1 cut(s)	164
VpaK11BI	GGWCC	2 cut(s)	214, 231
XspI	CTAG	1 cut(s)	59
ZraI	GACGTC	2 cut(s)	151, 166

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