Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0008286

Physical Location & Seq

Genomic Coordinates Reverse (-)

41856313 .. 41871707

Gene Structure 15395 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG349600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 543 bp

ATGTCCATTGATGAAAAAGAGGAGACTCCAACTTCAAAAAGGAAGGAAAAAGGTGACCCAGCGATTTTGTCCCTCCTCGTTCCCAGAAAGAATCGCAAGGCATTTGGCATCAGAACTTTGACCGACGCCGGGGCTGCTGCGGCGGTTGATGTTACTCAGCCTTATTCCGTCAAAATCCCCCTTGGTGATAGGCACATTTTGATTGAGACAGGTCATATTGGGAGACAAGCCAGTGGTTCTCTTACCGTCATAGATGGAGAAACTATTGTTTACACATCTGTTTGTTTGGCTGATGCTCCAAGTCAATCGTTAGACTTTTTCCCTCTTTCCGTTCATTATCAGGAGTGTTTTTCGGCAACAGGTTGGACTAGTGGAGGCTTTTTCAAACGAGAAGGAAGGGCAAAAGATCACGAGGTCGTAGTAGAGCATTTGTCAGTTGAGGAAATAGCTGGCATAAAGGAGGCATTTGAATTGATGGATACTGACAACAAAGGCAAGGTATCCCTGGATCAGTTTCGAAATGGAATACAAGAACTCGGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004540 GO:0004654 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006109 GO:0006139 GO:0006396 GO:0006401 GO:0006629 GO:0006720 GO:0006721 GO:0006725 GO:0006778 GO:0006779 GO:0006807 GO:0006950 GO:0007154 GO:0008150 GO:0008152 GO:0008299 GO:0008408 GO:0008610 GO:0009056 GO:0009057 GO:0009058 GO:0009267 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0009991 GO:0010322 GO:0010323 GO:0010467 GO:0010563 GO:0010565 GO:0010675 GO:0010677 GO:0015994 GO:0015995 GO:0016036 GO:0016070 GO:0016108 GO:0016109 GO:0016114 GO:0016116 GO:0016117 GO:0016119 GO:0016120 GO:0016122 GO:0016123 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0018130 GO:0019216 GO:0019220 GO:0019222 GO:0019438 GO:0019439 GO:0019747 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031425 GO:0031667 GO:0031668 GO:0031669 GO:0033013 GO:0033014 GO:0033554 GO:0034641 GO:0034655 GO:0042214 GO:0042440 GO:0042594 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044255 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045827 GO:0045833 GO:0045912 GO:0045936 GO:0046148 GO:0046246 GO:0046483 GO:0046700 GO:0046890 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051055 GO:0051174 GO:0051186 GO:0051188 GO:0051716 GO:0062012 GO:0062014 GO:0065007 GO:0071071 GO:0071072 GO:0071496 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901362 GO:1901564 GO:1901566 GO:1901575 GO:1901576 GO:1903725 GO:1903726

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko03018 map00230 map00240 map03018

Pfam Domains

Protein Families

KH_1 PNPase RNase_PH RNase_PH_C S1

Protein Analysis

180

Amino Acids

19.65

Weight (kDa)

5.4

Isoelectric Point (pI)

38.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	64 - 144	5.5e-09	3' exoribonuclease family, domain 1
EF-hand_6	PF13405	152 - 180	2.1e-06	EF-hand domain
EF-hand_1	PF00036	152 - 178	4.5e-06	EF hand domain

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: OG0008286)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47220
rosa_chinensis	RchiOBHm_Chr1g0315951 RchiOBHm_Chr1g0318391 RchiOBHm_Chr1g0348801 RchiOBHm_Chr5g0066701 RchiOBHm_Chr6g0274561
rosa_laevigata	RLG00000009806 RLG00000014185 RLG00000036187
rosa_multiflora	Rmu_sc0000148.1_g000004 Rmu_sc0002377.1_g000004
rosa_roxburghii	Rroxscaffold_4G00298160 Rroxscaffold_4G00308320
rosa_rugosa	Rorug02G0166300
rosa_samantha	Rh1AG058300 Rh1AG274400 Rh1BG049400 Rh1DG110100 Rh2AG452100 Rh2CG628200 Rh3CG349600 Rh5CG576900 Rh6BG000700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	140, 143
AclWI	GGATC	1 cut(s)	516
AcyI	GRCGYC	1 cut(s)	126
AfiI	CCNNNNNNNGG	1 cut(s)	129
AgsI	TTSAA	3 cut(s)	36, 385, 470
AhlI	ACTAGT	1 cut(s)	368
AjnI	CCWGG	1 cut(s)	504
AluBI	AGCT	1 cut(s)	449
AluI	AGCT	1 cut(s)	449
Alw26I	GTCTC	3 cut(s)	17, 200, 217
AlwI	GGATC	1 cut(s)	516
ApeKI	GCWGC	2 cut(s)	134, 137
AsuC2I	CCSGG	1 cut(s)	130
AsuHPI	GGTGA	2 cut(s)	65, 197
AsuII	TTCGAA	1 cut(s)	517
BauI	CACGAG	1 cut(s)	410
BbvI	GCAGC	2 cut(s)	121, 124
BccI	CCATC	2 cut(s)	248, 469
BciT130I	CCWGG	1 cut(s)	506
BciVI	GTATCC	2 cut(s)	472, 511
BcnI	CCSGG	1 cut(s)	130
BcoDI	GTCTC	3 cut(s)	17, 200, 217
BcuI	ACTAGT	1 cut(s)	368
BfaI	CTAG	2 cut(s)	369, 541
BfuI	GTATCC	2 cut(s)	472, 511
BisI	GCNGC	3 cut(s)	135, 138, 141
BlsI	GCNGC	3 cut(s)	136, 139, 142
Bme1390I	CCNGG	2 cut(s)	130, 506
BmrFI	CCNGG	2 cut(s)	130, 506
BmsI	GCATC	2 cut(s)	117, 283
Bpu14I	TTCGAA	1 cut(s)	517
BpuMI	CCSGG	1 cut(s)	130
BsaHI	GRCGYC	1 cut(s)	126
BsaJI	CCNNGG	3 cut(s)	129, 181, 504
Bsc4I	CCNNNNNNNGG	1 cut(s)	129
Bse1I	ACTGG	1 cut(s)	231
BseBI	CCWGG	1 cut(s)	506
BseDI	CCNNGG	3 cut(s)	129, 181, 504
BseLI	CCNNNNNNNGG	1 cut(s)	129
BseMII	CTCAG	1 cut(s)	170
BseNI	ACTGG	1 cut(s)	231
BseRI	GAGGAG	2 cut(s)	35, 65
BseXI	GCAGC	2 cut(s)	121, 124
BseYI	CCCAGC	1 cut(s)	58
BsiSI	CCGG	1 cut(s)	129
BslFI	GGGAC	1 cut(s)	55
BslI	CCNNNNNNNGG	1 cut(s)	129
BsmAI	GTCTC	3 cut(s)	17, 200, 217
BsmFI	GGGAC	1 cut(s)	55
Bsp119I	TTCGAA	1 cut(s)	517
Bsp143I	GATC	2 cut(s)	406, 508
BspACI	CCGC	2 cut(s)	140, 143
BspCNI	CTCAG	1 cut(s)	169
BspPI	GGATC	1 cut(s)	516
BspT104I	TTCGAA	1 cut(s)	517
BsrI	ACTGG	1 cut(s)	231
BssECI	CCNNGG	3 cut(s)	129, 181, 504
BssMI	GATC	2 cut(s)	406, 508
BssNI	GRCGYC	1 cut(s)	126
BssSI	CACGAG	1 cut(s)	410
BssT1I	CCWWGG	1 cut(s)	181
Bst2BI	CACGAG	1 cut(s)	410
Bst2UI	CCWGG	1 cut(s)	506
Bst4CI	ACNGT	1 cut(s)	247
BstACI	GRCGYC	1 cut(s)	126
BstBI	TTCGAA	1 cut(s)	517
BstC8I	GCNNGC	1 cut(s)	451
BstDEI	CTNAG	1 cut(s)	156
BstEII	GGTNACC	1 cut(s)	53
BstKTI	GATC	2 cut(s)	409, 511
BstMAI	GTCTC	3 cut(s)	17, 200, 217
BstMBI	GATC	2 cut(s)	406, 508
BstMWI	GCNNNNNNNGC	2 cut(s)	134, 140
BstNI	CCWGG	1 cut(s)	506
BstPI	GGTNACC	1 cut(s)	53
BstSCI	CCNGG	2 cut(s)	128, 504
BstV1I	GCAGC	2 cut(s)	121, 124
BsuI	GTATCC	2 cut(s)	472, 511
BtsIMutI	CAGTG	1 cut(s)	238
Cac8I	GCNNGC	1 cut(s)	451
CseI	GACGC	1 cut(s)	134
CviJI	RGCY	7 cut(s)	134, 160, 230, 290, 378, 449, 540
CviKI_1	RGCY	7 cut(s)	134, 160, 230, 290, 378, 449, 540
DdeI	CTNAG	1 cut(s)	156
DpnI	GATC	2 cut(s)	408, 510
DpnII	GATC	2 cut(s)	406, 508
Eco130I	CCWWGG	1 cut(s)	181
Eco91I	GGTNACC	1 cut(s)	53
EcoO65I	GGTNACC	1 cut(s)	53
EcoRII	CCWGG	1 cut(s)	504
EcoT14I	CCWWGG	1 cut(s)	181
ErhI	CCWWGG	1 cut(s)	181
FaiI	YATR	3 cut(s)	216, 251, 455
FaqI	GGGAC	1 cut(s)	55
Fnu4HI	GCNGC	3 cut(s)	135, 138, 141
Fsp4HI	GCNGC	3 cut(s)	135, 138, 141
FspBI	CTAG	2 cut(s)	369, 541
GluI	GCNGC	3 cut(s)	135, 138, 141
GsaI	CCCAGC	1 cut(s)	62
HapII	CCGG	1 cut(s)	129
HgaI	GACGC	1 cut(s)	134
Hin1I	GRCGYC	1 cut(s)	126
HinfI	GANTC	2 cut(s)	25, 91
HpaII	CCGG	1 cut(s)	129
HphI	GGTGA	2 cut(s)	65, 197
Hpy166II	GTNNAC	1 cut(s)	271
Hpy188I	TCNGA	1 cut(s)	113
Hpy188III	TCNNGA	2 cut(s)	341, 410
Hpy8I	GTNNAC	1 cut(s)	271
Hpy99I	CGWCG	1 cut(s)	128
HpyAV	CCTTC	3 cut(s)	37, 386, 390
HpyCH4III	ACNGT	1 cut(s)	247
HpyF10VI	GCNNNNNNNGC	2 cut(s)	134, 140
HpyF3I	CTNAG	1 cut(s)	156
Hsp92I	GRCGYC	1 cut(s)	126
Kzo9I	GATC	2 cut(s)	406, 508
LmnI	GCTCC	1 cut(s)	301
Lsp1109I	GCAGC	2 cut(s)	121, 124
LweI	GCATC	2 cut(s)	117, 283
MaeI	CTAG	2 cut(s)	369, 541
MaeIII	GTNAC	2 cut(s)	53, 151
MalI	GATC	2 cut(s)	408, 510
MboI	GATC	2 cut(s)	406, 508
MluCI	AATT	1 cut(s)	470
MlyI	GAGTC	1 cut(s)	19
MmeI	TCCRAC	2 cut(s)	53, 344
MnlI	CCTC	8 cut(s)	13, 83, 86, 333, 368, 406, 433, 454
MspI	CCGG	1 cut(s)	129
MspR9I	CCNGG	2 cut(s)	130, 506
MvaI	CCWGG	1 cut(s)	506
MwoI	GCNNNNNNNGC	2 cut(s)	134, 140
NciI	CCSGG	1 cut(s)	130
NdeII	GATC	2 cut(s)	406, 508
NmeAIII	GCCGAG	1 cut(s)	516
NmuCI	GTSAC	1 cut(s)	53
NspV	TTCGAA	1 cut(s)	517
PfeI	GAWTC	1 cut(s)	91
PkrI	GCNGC	3 cut(s)	136, 139, 142
PleI	GAGTC	1 cut(s)	19
PpsI	GAGTC	1 cut(s)	19
Psp6I	CCWGG	1 cut(s)	504
PspEI	GGTNACC	1 cut(s)	53
PspFI	CCCAGC	1 cut(s)	58
PspGI	CCWGG	1 cut(s)	504
SatI	GCNGC	3 cut(s)	135, 138, 141
Sau3AI	GATC	2 cut(s)	406, 508
SchI	GAGTC	1 cut(s)	19
ScrFI	CCNGG	2 cut(s)	130, 506
SetI	ASST	6 cut(s)	55, 214, 364, 417, 451, 501
SfaNI	GCATC	2 cut(s)	117, 283
SfuI	TTCGAA	1 cut(s)	517
SpeI	ACTAGT	1 cut(s)	368
Sse9I	AATT	1 cut(s)	470
SsiI	CCGC	2 cut(s)	140, 143
SspMI	CTAG	2 cut(s)	369, 541
StyD4I	CCNGG	2 cut(s)	128, 504
StyI	CCWWGG	1 cut(s)	181
TaaI	ACNGT	1 cut(s)	247
TaqI	TCGA	1 cut(s)	517
TaqII	GACCGA	1 cut(s)	137
TasI	AATT	1 cut(s)	470
TauI	GCSGC	1 cut(s)	143
TfiI	GAWTC	1 cut(s)	91
TscAI	CASTG	1 cut(s)	238
TseFI	GTSAC	1 cut(s)	53
TseI	GCWGC	2 cut(s)	134, 137
Tsp45I	GTSAC	1 cut(s)	53
TspDTI	ATGAA	2 cut(s)	27, 323
TspGWI	ACGGA	2 cut(s)	157, 319
TspRI	CASTG	1 cut(s)	238
XspI	CTAG	2 cut(s)	369, 541

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